This run was generated using rMAP version performed on 2021-09-04… Thank you for using this pipeline!!


Assembly summary statistics


Field Description
SampleID Name of the sample
TrimReads Total number of reads after quality filtering
MeanReadLen Average read length after quality filtering
Contigs Number of contigs of the draft genome (>200bp)
GenomeLength Length (bp) of the draft genome
LargestContig Length (bp) of the largest contig in the genome
N50 Length of the smallest contig in the set that contains the fewest (largest) contigs whose combined length represents at least 50% of the assembly
GC-Content GC content (%) of the draft genome
Depth Number of times each nucleotide position in the draft genome has a read that aligns to that position


SampleID TrimReads MeanReadLen Contigs GenomeLength LargestContig N50 GC-Content Depth
ID001 607731 132 166 4903199 254692 68520 54.84 16X
ID013II 424032 129 100 4973917 468926 99959 54.52 10X
ID038 509079 131 113 5194279 403028 96579 54.73 12X
ID086II 519312 131 116 4697144 415883 100435 55.21 14X
ID086 444451 133 145 5201943 637862 260905 50.73 11X
ID267 484727 129 518 9382958 150287 36388 45.63 6X
ORTHO006E 2677 139 318 203965 2463 627 54.29 1X
ORTHO008E 407535 133 464 9656529 365862 43706 53.04 5X
ORTHO014EII 447820 134 114 4688847 410319 115038 55.20 12X
ORTHO025EII 387292 135 1206 4688468 68760 7740 32.83 11X
ORTHO025E 399676 133 187 5401176 306135 87724 54.99 9X

Select the parameter

Number of reads

Average number of reads per sample = 421303

Average read length

Average read length per sample = 133 bp

Number of contigs

Average number of contigs per sample = 313

Genome length

Average genome length per sample = 5362948 bp

Largest contig length

Average largest contig length per sample = 316747 bp

N50

Average N50 per sample = 83420 bp

GC content

Average GC content per sample = 51.455%

Sequencing depth

Average sequencing depth = 9.727X

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SNP-variant calling


Field Description
GenomePosition Position in the genome where SNP is found
Type Nature of the SNP identified (Only ‘True’ SNPs are shown by default)
ReferenceAllele Allele found in the reference genome
AlternateAllele Allele found in the genome of interest forming the SNP
Consequence Amino acid alterations caused by the SNP
AffectedGene The tartget gene affected by the SNP
Product The outcome from the presence of the SNP


Select the sample

ID001
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
29509 snp G T missense_variant c.846G>T p.Leu282Phe multidrug resistance protein MdtH
303195 snp G A missense_variant c.1496C>T p.Ala499Val EmrB/QacA subfamily drug resistance transporter
303342 snp A T missense_variant c.1349T>A p.Leu450Gln EmrB/QacA subfamily drug resistance transporter
303916 snp T C missense_variant c.775A>G p.Met259Val EmrB/QacA subfamily drug resistance transporter
303946 snp C T missense_variant c.745G>A p.Val249Ile EmrB/QacA subfamily drug resistance transporter
303995 snp A T missense_variant c.696T>A p.Asp232Glu EmrB/QacA subfamily drug resistance transporter
304411 snp T C missense_variant c.280A>G p.Ile94Val EmrB/QacA subfamily drug resistance transporter
305128 snp A C missense_variant c.654T>G p.Asp218Glu Putative multidrug resistance protein K
790153 snp G A missense_variant c.323C>T p.Thr108Ile glyoxalase/bleomycin resistance protein/dioxygenase
790302 snp G C missense_variant c.174C>G p.Asp58Glu glyoxalase/bleomycin resistance protein/dioxygenase
790367 snp C T missense_variant c.109G>A p.Val37Met glyoxalase/bleomycin resistance protein/dioxygenase
1172546 snp C A missense_variant c.237C>A p.Asp79Glu Organic hydroperoxide resistance protein
1333301 snp A C missense_variant c.157A>C p.Met53Leu bioflm peroxide resistance protein BsmA
1333333 snp C G missense_variant c.189C>G p.Asp63Glu bioflm peroxide resistance protein BsmA
1750949 snp A G missense_variant c.496A>G p.Thr166Ala emrD multidrug resistance protein D
1751250 snp C A missense_variant c.797C>A p.Pro266Gln emrD multidrug resistance protein D
1751337 snp A G missense_variant c.884A>G p.Asp295Gly emrD multidrug resistance protein D
1912419 snp A C missense_variant c.48A>C p.Glu16Asp 6-N-hydroxylaminopurine resistance protein
1912579 snp G A missense_variant c.208G>A p.Ala70Thr 6-N-hydroxylaminopurine resistance protein
1912593 snp A C missense_variant c.222A>C p.Glu74Asp 6-N-hydroxylaminopurine resistance protein
1912784 snp A G missense_variant c.413A>G p.Asn138Ser 6-N-hydroxylaminopurine resistance protein
2110164 snp T C missense_variant c.620A>G p.Glu207Gly cusR two-component system, OmpR family, copper resistance phosphate
2110400 snp A C missense_variant c.384T>G p.Phe128Leu cusR two-component system, OmpR family, copper resistance phosphate
2134402 snp C A missense_variant c.556C>A p.His186Asn tellurium resistance protein TerC
2134459 snp A C missense_variant c.613A>C p.Lys205Gln tellurium resistance protein TerC
2713270 snp A C missense_variant c.491A>C p.Lys164Thr putative glyoxalase/bleomycin resistance protein/dioxygenase
2955613 snp T C missense_variant c.1525A>G p.Ser509Gly EmrB/QacA family drug resistance transporter
2955633 snp T C missense_variant c.1505A>G p.Lys502Arg EmrB/QacA family drug resistance transporter
2955720 snp T C missense_variant c.1418A>G p.Asn473Ser EmrB/QacA family drug resistance transporter
2955739 snp G T missense_variant c.1399C>A p.Leu467Ile EmrB/QacA family drug resistance transporter
2955813 snp A T missense_variant c.1325T>A p.Phe442Tyr EmrB/QacA family drug resistance transporter
2956717 snp T C missense_variant c.421A>G p.Ile141Val EmrB/QacA family drug resistance transporter
2956743 snp T C missense_variant c.395A>G p.Asn132Ser EmrB/QacA family drug resistance transporter
3506189 snp C T missense_variant c.11C>T p.Ser4Phe multidrug resistance outer membrane protein MdtQ
3506195 snp C T missense_variant c.17C>T p.Thr6Ile multidrug resistance outer membrane protein MdtQ
3506251 snp G T missense_variant c.73G>T p.Ala25Ser multidrug resistance outer membrane protein MdtQ
3506330 snp G A missense_variant c.152G>A p.Ser51Asn multidrug resistance outer membrane protein MdtQ
3507105 snp T G missense_variant c.927T>G p.Asp309Glu multidrug resistance outer membrane protein MdtQ
4211972 snp G A missense_variant c.235G>A p.Val79Met methyl viologen resistance protein SmvA
4212407 snp A C missense_variant c.670A>C p.Met224Leu methyl viologen resistance protein SmvA
4212768 snp C T missense_variant c.1031C>T p.Thr344Met methyl viologen resistance protein SmvA
4308046 snp G T missense_variant c.496C>A p.Leu166Ile multiple drug resistance protein MarC
4308085 snp G C missense_variant c.457C>G p.His153Asp multiple drug resistance protein MarC
4308254 snp G C missense_variant c.288C>G p.His96Gln multiple drug resistance protein MarC
4309671 snp T G missense_variant c.7T>G p.Phe3Val multiple antibiotic resistance regulatory periplasmic protein MarB
4309692 snp A G missense_variant c.28A>G p.Thr10Ala multiple antibiotic resistance regulatory periplasmic protein MarB
4309707 snp G T missense_variant c.43G>T p.Val15Phe multiple antibiotic resistance regulatory periplasmic protein MarB
4309713 snp G A missense_variant c.49G>A p.Gly17Ser multiple antibiotic resistance regulatory periplasmic protein MarB
4309776 snp A T missense_variant c.112A>T p.Met38Leu multiple antibiotic resistance regulatory periplasmic protein MarB
4332012 snp G C missense_variant c.455C>G p.Thr152Ser tellurite resistance protein TehB
4332054 snp T G missense_variant c.413A>C p.Glu138Ala tellurite resistance protein TehB
4793901 snp C A missense_variant c.102G>T p.Gln34His multiple stress resistance protein BhsA
ID013II
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
29714 snp A G missense_variant c.1051A>G p.Thr351Ala multidrug resistance protein MdtH
29786 snp A G missense_variant c.1123A>G p.Met375Val multidrug resistance protein MdtH
303195 snp G A missense_variant c.1496C>T p.Ala499Val EmrB/QacA subfamily drug resistance transporter
303342 snp A T missense_variant c.1349T>A p.Leu450Gln EmrB/QacA subfamily drug resistance transporter
304411 snp T C missense_variant c.280A>G p.Ile94Val EmrB/QacA subfamily drug resistance transporter
304546 snp C A missense_variant c.145G>T p.Ala49Ser EmrB/QacA subfamily drug resistance transporter
304869 snp T C missense_variant c.913A>G p.Ile305Val Putative multidrug resistance protein K
305427 snp T G missense_variant c.355A>C p.Lys119Gln Putative multidrug resistance protein K
790406 snp A G missense_variant c.70T>C p.Ser24Pro glyoxalase/bleomycin resistance protein/dioxygenase
1172546 snp C G missense_variant c.237C>G p.Asp79Glu Organic hydroperoxide resistance protein
1333439 snp A C missense_variant c.295A>C p.Ser99Arg bioflm peroxide resistance protein BsmA
1750694 snp A T missense_variant c.241A>T p.Ser81Cys emrD multidrug resistance protein D
1751250 snp C A missense_variant c.797C>A p.Pro266Gln emrD multidrug resistance protein D
1912419 snp A C missense_variant c.48A>C p.Glu16Asp 6-N-hydroxylaminopurine resistance protein
1912479 snp T G missense_variant c.108T>G p.Asp36Glu 6-N-hydroxylaminopurine resistance protein
1912533 snp T A missense_variant c.162T>A p.Asp54Glu 6-N-hydroxylaminopurine resistance protein
1912660 snp A G missense_variant c.289A>G p.Asn97Asp 6-N-hydroxylaminopurine resistance protein
1912682 snp A T missense_variant c.311A>T p.Tyr104Phe 6-N-hydroxylaminopurine resistance protein
1912820 snp A T missense_variant c.449A>T p.Gln150Leu 6-N-hydroxylaminopurine resistance protein
2134459 snp A C missense_variant c.613A>C p.Lys205Gln tellurium resistance protein TerC
2955739 snp G T missense_variant c.1399C>A p.Leu467Ile EmrB/QacA family drug resistance transporter
2955778 snp C G missense_variant c.1360G>C p.Glu454Gln EmrB/QacA family drug resistance transporter
2955813 snp A T missense_variant c.1325T>A p.Phe442Tyr EmrB/QacA family drug resistance transporter
2956522 snp C T missense_variant c.616G>A p.Gly206Ser EmrB/QacA family drug resistance transporter
2956717 snp T C missense_variant c.421A>G p.Ile141Val EmrB/QacA family drug resistance transporter
3506802 snp A C missense_variant c.624A>C p.Glu208Asp multidrug resistance outer membrane protein MdtQ
3507065 snp A C missense_variant c.887A>C p.Glu296Ala multidrug resistance outer membrane protein MdtQ
3507325 snp G A missense_variant c.1147G>A p.Asp383Asn multidrug resistance outer membrane protein MdtQ
3507368 snp C T missense_variant c.1190C>T p.Thr397Met multidrug resistance outer membrane protein MdtQ
4212440 snp A T missense_variant c.703A>T p.Met235Leu methyl viologen resistance protein SmvA
4308254 snp G T missense_variant c.288C>A p.His96Gln multiple drug resistance protein MarC
4308416 snp C A missense_variant c.126G>T p.Gln42His multiple drug resistance protein MarC
4309692 snp A G missense_variant c.28A>G p.Thr10Ala multiple antibiotic resistance regulatory periplasmic protein MarB
4309713 snp G A missense_variant c.49G>A p.Gly17Ser multiple antibiotic resistance regulatory periplasmic protein MarB
4309720 snp G C missense_variant c.56G>C p.Ser19Thr multiple antibiotic resistance regulatory periplasmic protein MarB
4309734 snp A C missense_variant c.70A>C p.Thr24Pro multiple antibiotic resistance regulatory periplasmic protein MarB
4309762 snp G A missense_variant c.98G>A p.Arg33His multiple antibiotic resistance regulatory periplasmic protein MarB
4309776 snp A T missense_variant c.112A>T p.Met38Leu multiple antibiotic resistance regulatory periplasmic protein MarB
4331998 snp T G missense_variant c.469A>C p.Asn157His tellurite resistance protein TehB
4332137 snp A T missense_variant c.330T>A p.Asn110Lys tellurite resistance protein TehB
4332198 snp G C missense_variant c.269C>G p.Thr90Ser tellurite resistance protein TehB
4332204 snp T C missense_variant c.263A>G p.Asn88Ser tellurite resistance protein TehB
4332463 snp T C missense_variant c.4A>G p.Thr2Ala tellurite resistance protein TehB
4332471 snp T G missense_variant c.991A>C p.Lys331Gln tellurite resistance protein TehA
4332491 snp A C missense_variant c.971T>G p.Leu324Arg tellurite resistance protein TehA
4332504 snp C T missense_variant c.958G>A p.Ala320Thr tellurite resistance protein TehA
4332526 snp C T missense_variant c.936G>A p.Met312Ile tellurite resistance protein TehA
4332628 snp C G missense_variant c.834G>C p.Gln278His tellurite resistance protein TehA
4332723 snp T A missense_variant c.739A>T p.Met247Leu tellurite resistance protein TehA
4562255 snp T G missense_variant c.304T>G p.Ser102Ala fusaric acid resistance protein
4793901 snp C A missense_variant c.102G>T p.Gln34His multiple stress resistance protein BhsA
ID038
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
29423 snp T A missense_variant c.760T>A p.Cys254Ser multidrug resistance protein MdtH
38920 snp A C missense_variant c.1220A>C p.Gln407Pro multidrug resistance protein MdtG
790177 snp C T missense_variant c.299G>A p.Gly100Asp glyoxalase/bleomycin resistance protein/dioxygenase
1172663 snp G T missense_variant c.354G>T p.Glu118Asp Organic hydroperoxide resistance protein
1333165 snp T A missense_variant c.21T>A p.Phe7Leu bioflm peroxide resistance protein BsmA
1333235 snp A G missense_variant c.91A>G p.Asn31Asp bioflm peroxide resistance protein BsmA
1333439 snp A C missense_variant c.295A>C p.Ser99Arg bioflm peroxide resistance protein BsmA
1717414 snp C T missense_variant c.829G>A p.Val277Ile EmrB/QacA family drug resistance transporter
1727078 snp A T missense_variant c.1132A>T p.Ile378Phe Bcr/CflA family drug resistance efflux transporter
1727098 snp A T missense_variant c.1152A>T p.Lys384Asn Bcr/CflA family drug resistance efflux transporter
1750949 snp A G missense_variant c.496A>G p.Thr166Ala emrD multidrug resistance protein D
1912597 snp G A missense_variant c.226G>A p.Ala76Thr 6-N-hydroxylaminopurine resistance protein
2110117 snp C T missense_variant c.667G>A p.Val223Ile cusR two-component system, OmpR family, copper resistance phosphate
2110164 snp T C missense_variant c.620A>G p.Glu207Gly cusR two-component system, OmpR family, copper resistance phosphate
2110381 snp T C missense_variant c.403A>G p.Ile135Val cusR two-component system, OmpR family, copper resistance phosphate
2110402 snp A G missense_variant c.382T>C p.Phe128Leu cusR two-component system, OmpR family, copper resistance phosphate
2110581 snp G C missense_variant c.203C>G p.Thr68Ser cusR two-component system, OmpR family, copper resistance phosphate
2124246 snp G T missense_variant c.46G>T p.Gly16Cys copper resistance protein B
2712819 snp G C missense_variant c.40G>C p.Glu14Gln putative glyoxalase/bleomycin resistance protein/dioxygenase
2751139 snp G A missense_variant c.313C>T p.Pro105Ser copper resistance protein
2751219 snp A C missense_variant c.233T>G p.Ile78Ser copper resistance protein
2751301 snp T C missense_variant c.151A>G p.Thr51Ala copper resistance protein
2751337 snp C T missense_variant c.115G>A p.Ala39Thr copper resistance protein
2878355 snp T C missense_variant c.23A>G p.Asp8Gly quinolone resistance protein
3472268 snp G T missense_variant c.1049C>A p.Ala350Asp phage resistance protein
3472535 snp C T missense_variant c.782G>A p.Arg261His phage resistance protein
3472612 snp A T missense_variant c.705T>A p.Asp235Glu phage resistance protein
3472710 snp G A missense_variant c.607C>T p.Pro203Ser phage resistance protein
3472779 snp C T missense_variant c.538G>A p.Asp180Asn phage resistance protein
3506390 snp A C missense_variant c.212A>C p.Glu71Ala multidrug resistance outer membrane protein MdtQ
3507366 snp A T missense_variant c.1188A>T p.Glu396Asp multidrug resistance outer membrane protein MdtQ
3507514 snp A G missense_variant c.1336A>G p.Thr446Ala multidrug resistance outer membrane protein MdtQ
4212221 snp T G missense_variant c.484T>G p.Ser162Ala methyl viologen resistance protein SmvA
4213168 snp G T missense_variant c.1431G>T p.Met477Ile methyl viologen resistance protein SmvA
4333297 snp G C missense_variant c.165C>G p.Phe55Leu tellurite resistance protein TehA
4563093 snp C T missense_variant c.1142C>T p.Thr381Ile fusaric acid resistance protein
ID086II
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
38001 snp G A missense_variant c.301G>A p.Val101Met multidrug resistance protein MdtG
38613 snp T A missense_variant c.913T>A p.Leu305Met multidrug resistance protein MdtG
305427 snp T G missense_variant c.355A>C p.Lys119Gln Putative multidrug resistance protein K
790352 snp T C missense_variant c.124A>G p.Ile42Val glyoxalase/bleomycin resistance protein/dioxygenase
790359 snp A C missense_variant c.117T>G p.Asp39Glu glyoxalase/bleomycin resistance protein/dioxygenase
1333165 snp T A missense_variant c.21T>A p.Phe7Leu bioflm peroxide resistance protein BsmA
1333196 snp A G missense_variant c.52A>G p.Ile18Val bioflm peroxide resistance protein BsmA
1333235 snp A G missense_variant c.91A>G p.Asn31Asp bioflm peroxide resistance protein BsmA
1333439 snp A C missense_variant c.295A>C p.Ser99Arg bioflm peroxide resistance protein BsmA
1716676 snp A T missense_variant c.1567T>A p.Ser523Thr EmrB/QacA family drug resistance transporter
1717414 snp C T missense_variant c.829G>A p.Val277Ile EmrB/QacA family drug resistance transporter
1717441 snp G T missense_variant c.802C>A p.Leu268Met EmrB/QacA family drug resistance transporter
1725956 snp C G missense_variant c.10C>G p.Leu4Val Bcr/CflA family drug resistance efflux transporter
1726520 snp G A missense_variant c.574G>A p.Gly192Arg Bcr/CflA family drug resistance efflux transporter
1726853 snp A G missense_variant c.907A>G p.Ile303Val Bcr/CflA family drug resistance efflux transporter
1726931 snp G A missense_variant c.985G>A p.Ala329Thr Bcr/CflA family drug resistance efflux transporter
1727098 snp A T missense_variant c.1152A>T p.Lys384Asn Bcr/CflA family drug resistance efflux transporter
1750715 snp G A missense_variant c.262G>A p.Val88Met emrD multidrug resistance protein D
1750870 snp G C missense_variant c.417G>C p.Met139Ile emrD multidrug resistance protein D
1750992 snp C G missense_variant c.539C>G p.Ala180Gly emrD multidrug resistance protein D
1912415 snp A T missense_variant c.44A>T p.Tyr15Phe 6-N-hydroxylaminopurine resistance protein
1912579 snp G A missense_variant c.208G>A p.Ala70Thr 6-N-hydroxylaminopurine resistance protein
1912999 snp T A missense_variant c.628T>A p.Leu210Ile 6-N-hydroxylaminopurine resistance protein
2110117 snp C T missense_variant c.667G>A p.Val223Ile cusR two-component system, OmpR family, copper resistance phosphate
2110164 snp T C missense_variant c.620A>G p.Glu207Gly cusR two-component system, OmpR family, copper resistance phosphate
2110381 snp T C missense_variant c.403A>G p.Ile135Val cusR two-component system, OmpR family, copper resistance phosphate
2110402 snp A G missense_variant c.382T>C p.Phe128Leu cusR two-component system, OmpR family, copper resistance phosphate
2110581 snp G C missense_variant c.203C>G p.Thr68Ser cusR two-component system, OmpR family, copper resistance phosphate
2124246 snp G T missense_variant c.46G>T p.Gly16Cys copper resistance protein B
2877327 snp A T missense_variant c.1051T>A p.Ser351Thr quinolone resistance protein
2877477 snp G A missense_variant c.901C>T p.His301Tyr quinolone resistance protein
2877627 snp T C missense_variant c.751A>G p.Ile251Val quinolone resistance protein
2878142 snp T A missense_variant c.236A>T p.Tyr79Phe quinolone resistance protein
2878355 snp T C missense_variant c.23A>G p.Asp8Gly quinolone resistance protein
3471912 snp A T missense_variant c.1405T>A p.Leu469Ile phage resistance protein
3472445 snp T C missense_variant c.872A>G p.Lys291Arg phage resistance protein
3472921 snp C G missense_variant c.396G>C p.Met132Ile phage resistance protein
3473003 snp T A missense_variant c.314A>T p.Tyr105Phe phage resistance protein
3473274 snp G T missense_variant c.43C>A p.Leu15Ile phage resistance protein
3473311 snp A T missense_variant c.6T>A p.Phe2Leu phage resistance protein
3506290 snp G A missense_variant c.112G>A p.Ala38Thr multidrug resistance outer membrane protein MdtQ
3506356 snp C T missense_variant c.178C>T p.Pro60Ser multidrug resistance outer membrane protein MdtQ
3506390 snp A C missense_variant c.212A>C p.Glu71Ala multidrug resistance outer membrane protein MdtQ
3506668 snp C A missense_variant c.490C>A p.Gln164Lys multidrug resistance outer membrane protein MdtQ
3506930 snp T C missense_variant c.752T>C p.Val251Ala multidrug resistance outer membrane protein MdtQ
3506959 snp C A missense_variant c.781C>A p.His261Asn multidrug resistance outer membrane protein MdtQ
3507514 snp A G missense_variant c.1336A>G p.Thr446Ala multidrug resistance outer membrane protein MdtQ
3813589 snp T C missense_variant c.71T>C p.Val24Ala copper resistance protein CopC
3813807 snp T A missense_variant c.289T>A p.Ser97Thr copper resistance protein CopC
4211829 snp C A missense_variant c.92C>A p.Thr31Lys methyl viologen resistance protein SmvA
4212256 snp C G missense_variant c.519C>G p.Ile173Met methyl viologen resistance protein SmvA
4213105 snp G A missense_variant c.1368G>A p.Met456Ile methyl viologen resistance protein SmvA
4308097 snp T A missense_variant c.445A>T p.Thr149Ser multiple drug resistance protein MarC
4309741 snp A G missense_variant c.77A>G p.Asn26Ser multiple antibiotic resistance regulatory periplasmic protein MarB
4332013 snp T G missense_variant c.454A>C p.Thr152Pro tellurite resistance protein TehB
4332229 snp C G missense_variant c.238G>C p.Glu80Gln tellurite resistance protein TehB
4333146 snp G C missense_variant c.316C>G p.Leu106Val tellurite resistance protein TehA
4562810 snp C T missense_variant c.859C>T p.Pro287Ser fusaric acid resistance protein
4562861 snp A G missense_variant c.910A>G p.Thr304Ala fusaric acid resistance protein
4563854 snp G A missense_variant c.1903G>A p.Ala635Thr fusaric acid resistance protein
ID086
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
1751337 snp A G missense_variant c.884A>G p.Asp295Gly emrD multidrug resistance protein D
2110350 snp A G missense_variant c.434T>C p.Val145Ala cusR two-component system, OmpR family, copper resistance phosphate
2956830 snp C T missense_variant c.308G>A p.Ser103Asn EmrB/QacA family drug resistance transporter
ID267
## Error in read.table("ID267_amr_snps", header = T, sep = "\t", dec = ".", : no lines available in input
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
1751337 snp A G missense_variant c.884A>G p.Asp295Gly emrD multidrug resistance protein D
2110350 snp A G missense_variant c.434T>C p.Val145Ala cusR two-component system, OmpR family, copper resistance phosphate
2956830 snp C T missense_variant c.308G>A p.Ser103Asn EmrB/QacA family drug resistance transporter
ORTHO006E
## Error in read.table("ORTHO006E_amr_snps", header = T, sep = "\t", dec = ".", : no lines available in input
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
1751337 snp A G missense_variant c.884A>G p.Asp295Gly emrD multidrug resistance protein D
2110350 snp A G missense_variant c.434T>C p.Val145Ala cusR two-component system, OmpR family, copper resistance phosphate
2956830 snp C T missense_variant c.308G>A p.Ser103Asn EmrB/QacA family drug resistance transporter
ORTHO008E
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
38920 snp A C missense_variant c.1220A>C p.Gln407Pro multidrug resistance protein MdtG
304886 snp A G missense_variant c.896T>C p.Met299Thr Putative multidrug resistance protein K
1172663 snp G T missense_variant c.354G>T p.Glu118Asp Organic hydroperoxide resistance protein
1333165 snp T A missense_variant c.21T>A p.Phe7Leu bioflm peroxide resistance protein BsmA
1333235 snp A G missense_variant c.91A>G p.Asn31Asp bioflm peroxide resistance protein BsmA
1333439 snp A C missense_variant c.295A>C p.Ser99Arg bioflm peroxide resistance protein BsmA
1717414 snp C T missense_variant c.829G>A p.Val277Ile EmrB/QacA family drug resistance transporter
1726853 snp A G missense_variant c.907A>G p.Ile303Val Bcr/CflA family drug resistance efflux transporter
1726898 snp A C missense_variant c.952A>C p.Ile318Leu Bcr/CflA family drug resistance efflux transporter
1726931 snp G A missense_variant c.985G>A p.Ala329Thr Bcr/CflA family drug resistance efflux transporter
1726938 snp A T missense_variant c.992A>T p.Glu331Val Bcr/CflA family drug resistance efflux transporter
1727098 snp A T missense_variant c.1152A>T p.Lys384Asn Bcr/CflA family drug resistance efflux transporter
1750949 snp A G missense_variant c.496A>G p.Thr166Ala emrD multidrug resistance protein D
2878142 snp T A missense_variant c.236A>T p.Tyr79Phe quinolone resistance protein
2878355 snp T C missense_variant c.23A>G p.Asp8Gly quinolone resistance protein
3472896 snp G T missense_variant c.421C>A p.Leu141Met phage resistance protein
3473172 snp C T missense_variant c.145G>A p.Asp49Asn phage resistance protein
3506278 snp G A missense_variant c.100G>A p.Ala34Thr multidrug resistance outer membrane protein MdtQ
3506390 snp A C missense_variant c.212A>C p.Glu71Ala multidrug resistance outer membrane protein MdtQ
3507352 snp G T missense_variant c.1174G>T p.Ala392Ser multidrug resistance outer membrane protein MdtQ
3507522 snp G C missense_variant c.1344G>C p.Leu448Phe multidrug resistance outer membrane protein MdtQ
4212221 snp T G missense_variant c.484T>G p.Ser162Ala methyl viologen resistance protein SmvA
4308097 snp T A missense_variant c.445A>T p.Thr149Ser multiple drug resistance protein MarC
4309873 snp A G missense_variant c.209A>G p.Asp70Gly multiple antibiotic resistance regulatory periplasmic protein MarB
4332137 snp A T missense_variant c.330T>A p.Asn110Lys tellurite resistance protein TehB
4332229 snp C G missense_variant c.238G>C p.Glu80Gln tellurite resistance protein TehB
4333307 snp G C missense_variant c.155C>G p.Ala52Gly tellurite resistance protein TehA
4563251 snp G A missense_variant c.1300G>A p.Val434Met fusaric acid resistance protein
ORTHO014EII
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
28957 snp A C missense_variant c.294A>C p.Glu98Asp multidrug resistance protein MdtH
37707 snp C T missense_variant c.7C>T p.Pro3Ser multidrug resistance protein MdtG
38108 snp G T missense_variant c.408G>T p.Gln136His multidrug resistance protein MdtG
38583 snp G C missense_variant c.883G>C p.Val295Leu multidrug resistance protein MdtG
38802 snp A G missense_variant c.1102A>G p.Ile368Val multidrug resistance protein MdtG
38917 snp G C missense_variant c.1217G>C p.Arg406Thr multidrug resistance protein MdtG
303906 snp C T missense_variant c.785G>A p.Arg262Lys EmrB/QacA subfamily drug resistance transporter
303924 snp T C missense_variant c.767A>G p.Tyr256Cys EmrB/QacA subfamily drug resistance transporter
304670 snp A T missense_variant c.21T>A p.Asp7Glu EmrB/QacA subfamily drug resistance transporter
305427 snp T G missense_variant c.355A>C p.Lys119Gln Putative multidrug resistance protein K
1172444 snp A C missense_variant c.135A>C p.Glu45Asp Organic hydroperoxide resistance protein
1333165 snp T A missense_variant c.21T>A p.Phe7Leu bioflm peroxide resistance protein BsmA
1333196 snp A G missense_variant c.52A>G p.Ile18Val bioflm peroxide resistance protein BsmA
1333235 snp A G missense_variant c.91A>G p.Asn31Asp bioflm peroxide resistance protein BsmA
1333439 snp A C missense_variant c.295A>C p.Ser99Arg bioflm peroxide resistance protein BsmA
1717563 snp C T missense_variant c.680G>A p.Ser227Asn EmrB/QacA family drug resistance transporter
1718220 snp G A missense_variant c.23C>T p.Ala8Val EmrB/QacA family drug resistance transporter
1750745 snp G A missense_variant c.292G>A p.Val98Ile emrD multidrug resistance protein D
1750949 snp A G missense_variant c.496A>G p.Thr166Ala emrD multidrug resistance protein D
1912579 snp G A missense_variant c.208G>A p.Ala70Thr 6-N-hydroxylaminopurine resistance protein
1912849 snp C A missense_variant c.478C>A p.Leu160Ile 6-N-hydroxylaminopurine resistance protein
1912886 snp A T missense_variant c.515A>T p.Tyr172Phe 6-N-hydroxylaminopurine resistance protein
1912934 snp A T missense_variant c.563A>T p.Tyr188Phe 6-N-hydroxylaminopurine resistance protein
1912999 snp T A missense_variant c.628T>A p.Leu210Ile 6-N-hydroxylaminopurine resistance protein
2110350 snp A G missense_variant c.434T>C p.Val145Ala cusR two-component system, OmpR family, copper resistance phosphate
2133974 snp T C missense_variant c.128T>C p.Val43Ala tellurium resistance protein TerC
2134454 snp A T missense_variant c.608A>T p.Glu203Val tellurium resistance protein TerC
2712786 snp G A missense_variant c.7G>A p.Val3Ile putative glyoxalase/bleomycin resistance protein/dioxygenase
2751262 snp A T missense_variant c.190T>A p.Ser64Thr copper resistance protein
2751301 snp T C missense_variant c.151A>G p.Thr51Ala copper resistance protein
2877327 snp A T missense_variant c.1051T>A p.Ser351Thr quinolone resistance protein
2877627 snp T C missense_variant c.751A>G p.Ile251Val quinolone resistance protein
2877844 snp C T missense_variant c.534G>A p.Met178Ile quinolone resistance protein
2878099 snp C T missense_variant c.279G>A p.Met93Ile quinolone resistance protein
2878142 snp T A missense_variant c.236A>T p.Tyr79Phe quinolone resistance protein
2955853 snp A C missense_variant c.1285T>G p.Ser429Ala EmrB/QacA family drug resistance transporter
2956361 snp A T missense_variant c.777T>A p.Asp259Glu EmrB/QacA family drug resistance transporter
3472223 snp C T missense_variant c.1094G>A p.Ser365Asn phage resistance protein
3472445 snp T C missense_variant c.872A>G p.Lys291Arg phage resistance protein
3472599 snp G C missense_variant c.718C>G p.Leu240Val phage resistance protein
3472622 snp G T missense_variant c.695C>A p.Thr232Lys phage resistance protein
3473147 snp T A missense_variant c.170A>T p.Tyr57Phe phage resistance protein
3473197 snp G T missense_variant c.120C>A p.Asp40Glu phage resistance protein
3506330 snp G A missense_variant c.152G>A p.Ser51Asn multidrug resistance outer membrane protein MdtQ
3506390 snp A C missense_variant c.212A>C p.Glu71Ala multidrug resistance outer membrane protein MdtQ
3506469 snp G T missense_variant c.291G>T p.Glu97Asp multidrug resistance outer membrane protein MdtQ
3506668 snp C A missense_variant c.490C>A p.Gln164Lys multidrug resistance outer membrane protein MdtQ
3506930 snp T C missense_variant c.752T>C p.Val251Ala multidrug resistance outer membrane protein MdtQ
3506959 snp C A missense_variant c.781C>A p.His261Asn multidrug resistance outer membrane protein MdtQ
3507514 snp A G missense_variant c.1336A>G p.Thr446Ala multidrug resistance outer membrane protein MdtQ
3507592 snp G A missense_variant c.1414G>A p.Gly472Ser multidrug resistance outer membrane protein MdtQ
3813589 snp T C missense_variant c.71T>C p.Val24Ala copper resistance protein CopC
3813807 snp T A missense_variant c.289T>A p.Ser97Thr copper resistance protein CopC
4212417 snp G C missense_variant c.680G>C p.Cys227Ser methyl viologen resistance protein SmvA
4212746 snp G A missense_variant c.1009G>A p.Val337Ile methyl viologen resistance protein SmvA
4213164 snp G C missense_variant c.1427G>C p.Gly476Ala methyl viologen resistance protein SmvA
4213172 snp C A missense_variant c.1435C>A p.Leu479Met methyl viologen resistance protein SmvA
4213184 snp G A missense_variant c.1447G>A p.Val483Ile methyl viologen resistance protein SmvA
4308408 snp A C missense_variant c.134T>G p.Met45Arg multiple drug resistance protein MarC
4309678 snp C T missense_variant c.14C>T p.Ala5Val multiple antibiotic resistance regulatory periplasmic protein MarB
4309741 snp A G missense_variant c.77A>G p.Asn26Ser multiple antibiotic resistance regulatory periplasmic protein MarB
4331893 snp G T missense_variant c.574C>A p.Leu192Ile tellurite resistance protein TehB
4331998 snp T G missense_variant c.469A>C p.Asn157His tellurite resistance protein TehB
4332137 snp A T missense_variant c.330T>A p.Asn110Lys tellurite resistance protein TehB
4332229 snp C G missense_variant c.238G>C p.Glu80Gln tellurite resistance protein TehB
4332397 snp T A missense_variant c.70A>T p.Ser24Cys tellurite resistance protein TehB
4332692 snp G A missense_variant c.770C>T p.Ala257Val tellurite resistance protein TehA
4562567 snp G A missense_variant c.616G>A p.Asp206Asn fusaric acid resistance protein
4563106 snp T A missense_variant c.1155T>A p.Asp385Glu fusaric acid resistance protein
ORTHO025EII
## Error in read.table("ORTHO025EII_amr_snps", header = T, sep = "\t", dec = ".", : no lines available in input
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
28957 snp A C missense_variant c.294A>C p.Glu98Asp multidrug resistance protein MdtH
37707 snp C T missense_variant c.7C>T p.Pro3Ser multidrug resistance protein MdtG
38108 snp G T missense_variant c.408G>T p.Gln136His multidrug resistance protein MdtG
38583 snp G C missense_variant c.883G>C p.Val295Leu multidrug resistance protein MdtG
38802 snp A G missense_variant c.1102A>G p.Ile368Val multidrug resistance protein MdtG
38917 snp G C missense_variant c.1217G>C p.Arg406Thr multidrug resistance protein MdtG
303906 snp C T missense_variant c.785G>A p.Arg262Lys EmrB/QacA subfamily drug resistance transporter
303924 snp T C missense_variant c.767A>G p.Tyr256Cys EmrB/QacA subfamily drug resistance transporter
304670 snp A T missense_variant c.21T>A p.Asp7Glu EmrB/QacA subfamily drug resistance transporter
305427 snp T G missense_variant c.355A>C p.Lys119Gln Putative multidrug resistance protein K
1172444 snp A C missense_variant c.135A>C p.Glu45Asp Organic hydroperoxide resistance protein
1333165 snp T A missense_variant c.21T>A p.Phe7Leu bioflm peroxide resistance protein BsmA
1333196 snp A G missense_variant c.52A>G p.Ile18Val bioflm peroxide resistance protein BsmA
1333235 snp A G missense_variant c.91A>G p.Asn31Asp bioflm peroxide resistance protein BsmA
1333439 snp A C missense_variant c.295A>C p.Ser99Arg bioflm peroxide resistance protein BsmA
1717563 snp C T missense_variant c.680G>A p.Ser227Asn EmrB/QacA family drug resistance transporter
1718220 snp G A missense_variant c.23C>T p.Ala8Val EmrB/QacA family drug resistance transporter
1750745 snp G A missense_variant c.292G>A p.Val98Ile emrD multidrug resistance protein D
1750949 snp A G missense_variant c.496A>G p.Thr166Ala emrD multidrug resistance protein D
1912579 snp G A missense_variant c.208G>A p.Ala70Thr 6-N-hydroxylaminopurine resistance protein
1912849 snp C A missense_variant c.478C>A p.Leu160Ile 6-N-hydroxylaminopurine resistance protein
1912886 snp A T missense_variant c.515A>T p.Tyr172Phe 6-N-hydroxylaminopurine resistance protein
1912934 snp A T missense_variant c.563A>T p.Tyr188Phe 6-N-hydroxylaminopurine resistance protein
1912999 snp T A missense_variant c.628T>A p.Leu210Ile 6-N-hydroxylaminopurine resistance protein
2110350 snp A G missense_variant c.434T>C p.Val145Ala cusR two-component system, OmpR family, copper resistance phosphate
2133974 snp T C missense_variant c.128T>C p.Val43Ala tellurium resistance protein TerC
2134454 snp A T missense_variant c.608A>T p.Glu203Val tellurium resistance protein TerC
2712786 snp G A missense_variant c.7G>A p.Val3Ile putative glyoxalase/bleomycin resistance protein/dioxygenase
2751262 snp A T missense_variant c.190T>A p.Ser64Thr copper resistance protein
2751301 snp T C missense_variant c.151A>G p.Thr51Ala copper resistance protein
2877327 snp A T missense_variant c.1051T>A p.Ser351Thr quinolone resistance protein
2877627 snp T C missense_variant c.751A>G p.Ile251Val quinolone resistance protein
2877844 snp C T missense_variant c.534G>A p.Met178Ile quinolone resistance protein
2878099 snp C T missense_variant c.279G>A p.Met93Ile quinolone resistance protein
2878142 snp T A missense_variant c.236A>T p.Tyr79Phe quinolone resistance protein
2955853 snp A C missense_variant c.1285T>G p.Ser429Ala EmrB/QacA family drug resistance transporter
2956361 snp A T missense_variant c.777T>A p.Asp259Glu EmrB/QacA family drug resistance transporter
3472223 snp C T missense_variant c.1094G>A p.Ser365Asn phage resistance protein
3472445 snp T C missense_variant c.872A>G p.Lys291Arg phage resistance protein
3472599 snp G C missense_variant c.718C>G p.Leu240Val phage resistance protein
3472622 snp G T missense_variant c.695C>A p.Thr232Lys phage resistance protein
3473147 snp T A missense_variant c.170A>T p.Tyr57Phe phage resistance protein
3473197 snp G T missense_variant c.120C>A p.Asp40Glu phage resistance protein
3506330 snp G A missense_variant c.152G>A p.Ser51Asn multidrug resistance outer membrane protein MdtQ
3506390 snp A C missense_variant c.212A>C p.Glu71Ala multidrug resistance outer membrane protein MdtQ
3506469 snp G T missense_variant c.291G>T p.Glu97Asp multidrug resistance outer membrane protein MdtQ
3506668 snp C A missense_variant c.490C>A p.Gln164Lys multidrug resistance outer membrane protein MdtQ
3506930 snp T C missense_variant c.752T>C p.Val251Ala multidrug resistance outer membrane protein MdtQ
3506959 snp C A missense_variant c.781C>A p.His261Asn multidrug resistance outer membrane protein MdtQ
3507514 snp A G missense_variant c.1336A>G p.Thr446Ala multidrug resistance outer membrane protein MdtQ
3507592 snp G A missense_variant c.1414G>A p.Gly472Ser multidrug resistance outer membrane protein MdtQ
3813589 snp T C missense_variant c.71T>C p.Val24Ala copper resistance protein CopC
3813807 snp T A missense_variant c.289T>A p.Ser97Thr copper resistance protein CopC
4212417 snp G C missense_variant c.680G>C p.Cys227Ser methyl viologen resistance protein SmvA
4212746 snp G A missense_variant c.1009G>A p.Val337Ile methyl viologen resistance protein SmvA
4213164 snp G C missense_variant c.1427G>C p.Gly476Ala methyl viologen resistance protein SmvA
4213172 snp C A missense_variant c.1435C>A p.Leu479Met methyl viologen resistance protein SmvA
4213184 snp G A missense_variant c.1447G>A p.Val483Ile methyl viologen resistance protein SmvA
4308408 snp A C missense_variant c.134T>G p.Met45Arg multiple drug resistance protein MarC
4309678 snp C T missense_variant c.14C>T p.Ala5Val multiple antibiotic resistance regulatory periplasmic protein MarB
4309741 snp A G missense_variant c.77A>G p.Asn26Ser multiple antibiotic resistance regulatory periplasmic protein MarB
4331893 snp G T missense_variant c.574C>A p.Leu192Ile tellurite resistance protein TehB
4331998 snp T G missense_variant c.469A>C p.Asn157His tellurite resistance protein TehB
4332137 snp A T missense_variant c.330T>A p.Asn110Lys tellurite resistance protein TehB
4332229 snp C G missense_variant c.238G>C p.Glu80Gln tellurite resistance protein TehB
4332397 snp T A missense_variant c.70A>T p.Ser24Cys tellurite resistance protein TehB
4332692 snp G A missense_variant c.770C>T p.Ala257Val tellurite resistance protein TehA
4562567 snp G A missense_variant c.616G>A p.Asp206Asn fusaric acid resistance protein
4563106 snp T A missense_variant c.1155T>A p.Asp385Glu fusaric acid resistance protein
ORTHO025E
GenomePosition Type ReferenceAllele AlternateAllele Consequence AffectedGene Product
29547 snp G A missense_variant c.884G>A p.Ser295Asn multidrug resistance protein MdtH
303906 snp C T missense_variant c.785G>A p.Arg262Lys EmrB/QacA subfamily drug resistance transporter
303916 snp T G missense_variant c.775A>C p.Met259Leu EmrB/QacA subfamily drug resistance transporter
304668 snp T C missense_variant c.23A>G p.Asn8Ser EmrB/QacA subfamily drug resistance transporter
304736 snp T C missense_variant c.1046A>G p.Lys349Arg Putative multidrug resistance protein K
305120 snp C T missense_variant c.662G>A p.Arg221Lys Putative multidrug resistance protein K
305514 snp C G missense_variant c.268G>C p.Val90Leu Putative multidrug resistance protein K
790180 snp T C missense_variant c.296A>G p.Gln99Arg glyoxalase/bleomycin resistance protein/dioxygenase
790210 snp T G missense_variant c.266A>C p.Glu89Ala glyoxalase/bleomycin resistance protein/dioxygenase
1333301 snp A T missense_variant c.157A>T p.Met53Leu bioflm peroxide resistance protein BsmA
1333421 snp G T missense_variant c.277G>T p.Ala93Ser bioflm peroxide resistance protein BsmA
1333439 snp A C missense_variant c.295A>C p.Ser99Arg bioflm peroxide resistance protein BsmA
1716706 snp G A missense_variant c.1537C>T p.Arg513Trp EmrB/QacA family drug resistance transporter
1716804 snp A G missense_variant c.1439T>C p.Val480Ala EmrB/QacA family drug resistance transporter
1716838 snp T G missense_variant c.1405A>C p.Met469Leu EmrB/QacA family drug resistance transporter
1716962 snp G C missense_variant c.1281C>G p.Ile427Met EmrB/QacA family drug resistance transporter
1717665 snp C T missense_variant c.578G>A p.Arg193His EmrB/QacA family drug resistance transporter
1751045 snp G A missense_variant c.592G>A p.Ala198Thr emrD multidrug resistance protein D
1751337 snp A G missense_variant c.884A>G p.Asp295Gly emrD multidrug resistance protein D
1751345 snp T A missense_variant c.892T>A p.Ser298Thr emrD multidrug resistance protein D
1912498 snp C G missense_variant c.127C>G p.Gln43Glu 6-N-hydroxylaminopurine resistance protein
1912533 snp T G missense_variant c.162T>G p.Asp54Glu 6-N-hydroxylaminopurine resistance protein
2110653 snp T C missense_variant c.131A>G p.Glu44Gly cusR two-component system, OmpR family, copper resistance phosphate
2134096 snp G A missense_variant c.250G>A p.Val84Ile tellurium resistance protein TerC
2134459 snp A C missense_variant c.613A>C p.Lys205Gln tellurium resistance protein TerC
2134864 snp G A missense_variant c.1018G>A p.Glu340Lys tellurium resistance protein TerC
2713345 snp T C missense_variant c.566T>C p.Val189Ala putative glyoxalase/bleomycin resistance protein/dioxygenase
2713393 snp A G missense_variant c.614A>G p.Lys205Arg putative glyoxalase/bleomycin resistance protein/dioxygenase
2713470 snp C A missense_variant c.691C>A p.His231Asn putative glyoxalase/bleomycin resistance protein/dioxygenase
2751162 snp T A missense_variant c.290A>T p.Gln97Leu copper resistance protein
2751325 snp A G missense_variant c.127T>C p.Ser43Pro copper resistance protein
2751426 snp A G missense_variant c.26T>C p.Ile9Thr copper resistance protein
2877294 snp C T missense_variant c.1084G>A p.Val362Ile quinolone resistance protein
2877975 snp C G missense_variant c.403G>C p.Glu135Gln quinolone resistance protein
2878059 snp G T missense_variant c.319C>A p.Leu107Met quinolone resistance protein
2878099 snp C G missense_variant c.279G>C p.Met93Ile quinolone resistance protein
2878128 snp G T missense_variant c.250C>A p.Leu84Met quinolone resistance protein
2955739 snp G T missense_variant c.1399C>A p.Leu467Ile EmrB/QacA family drug resistance transporter
2956830 snp C T missense_variant c.308G>A p.Ser103Asn EmrB/QacA family drug resistance transporter
3506745 snp C G missense_variant c.567C>G p.Asp189Glu multidrug resistance outer membrane protein MdtQ
3506755 snp G C missense_variant c.577G>C p.Glu193Gln multidrug resistance outer membrane protein MdtQ
3507113 snp G A missense_variant c.935G>A p.Arg312Lys multidrug resistance outer membrane protein MdtQ
3507384 snp T A missense_variant c.1206T>A p.Asn402Lys multidrug resistance outer membrane protein MdtQ
3507390 snp C A missense_variant c.1212C>A p.His404Gln multidrug resistance outer membrane protein MdtQ
3507400 snp A G missense_variant c.1222A>G p.Ile408Val multidrug resistance outer membrane protein MdtQ
4212407 snp A C missense_variant c.670A>C p.Met224Leu methyl viologen resistance protein SmvA
4212647 snp G C missense_variant c.910G>C p.Val304Leu methyl viologen resistance protein SmvA
4213058 snp A G missense_variant c.1321A>G p.Met441Val methyl viologen resistance protein SmvA
4308039 snp G C missense_variant c.503C>G p.Ala168Gly multiple drug resistance protein MarC
4308085 snp G C missense_variant c.457C>G p.His153Asp multiple drug resistance protein MarC
4308254 snp G T missense_variant c.288C>A p.His96Gln multiple drug resistance protein MarC
4308416 snp C A missense_variant c.126G>T p.Gln42His multiple drug resistance protein MarC
4309692 snp A G missense_variant c.28A>G p.Thr10Ala multiple antibiotic resistance regulatory periplasmic protein MarB
4309707 snp G T missense_variant c.43G>T p.Val15Phe multiple antibiotic resistance regulatory periplasmic protein MarB
4309713 snp G A missense_variant c.49G>A p.Gly17Ser multiple antibiotic resistance regulatory periplasmic protein MarB
4309720 snp G C missense_variant c.56G>C p.Ser19Thr multiple antibiotic resistance regulatory periplasmic protein MarB
4309776 snp A T missense_variant c.112A>T p.Met38Leu multiple antibiotic resistance regulatory periplasmic protein MarB
4332198 snp G T missense_variant c.269C>A p.Thr90Asn tellurite resistance protein TehB
4332204 snp T C missense_variant c.263A>G p.Asn88Ser tellurite resistance protein TehB
4332463 snp T C missense_variant c.4A>G p.Thr2Ala tellurite resistance protein TehB
4332526 snp C T missense_variant c.936G>A p.Met312Ile tellurite resistance protein TehA
4562255 snp T G missense_variant c.304T>G p.Ser102Ala fusaric acid resistance protein
4562425 snp G T missense_variant c.474G>T p.Met158Ile fusaric acid resistance protein
4562569 snp C A missense_variant c.618C>A p.Asp206Glu fusaric acid resistance protein
4563261 snp C G missense_variant c.1310C>G p.Thr437Ser fusaric acid resistance protein


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Phylogenetic inference

Phylogenetic inference based on vcf SNPS

Rectangular (phylogram)

Circular (phylogram)

Circular (cladogram)


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Antimicrobial Resistance Profiling


Field Description
Contig Contig name where the gene was found
Start Start position of the gene within the contig
End End position of the gene within the contig
Gene Antibiotic resistance gene
Gaps Gaps in subject (genome) and query (antibiotic resistance gene)
Coverage Proportion (%) of the gene covered
Identity Proportion (%) of exact nucleotide matches
Accession Accesion number of the antibiotic resistance gene
Product Antibiotic resistance gene product
Resistance Antibiotic that the gene confers resistance to


Select the samples and the database

ID001
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00122 1696 2556 aac(3)-IIa_1 0/0 100.0 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00135 1539 2138 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00006 17148 18290 blaACT-9_1 0/0 100.0 99.1 HQ693810 blaACT-9
contig00059 21958 22833 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00135 578 1408 blaOXA-1_1 0/0 100.0 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00103 5401 5883 dfrA14_5 0/0 100.0 99.6 DQ388123 dfrA14 Trimethoprim
contig00091 5018 5443 fosA_7 0/0 100.0 95.3 AEXB01000013 fosA Fosfomycin
contig00108 4404 5048 qnrB1_1 0/0 100.0 100.0 DQ351241 qnrB1 Ciprofloxacin
contig00120 1429 2697 tet(A)_6 1/22 97.8 93.2 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00122 1696 2556 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00135 1539 2138 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00006 17145 18290 ACT-28 0/0 100.0 100.0 KJ207206:751-1897 ACT-28 is a beta-lactamase. From the Lahey list of ACT beta-lactamases. carbapenem, cephalosporin, cephamycin, penam
contig00059 21958 22833 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00103 5401 5883 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00080 5981 7174 Enterobacter_cloacae_acrA 0/0 100.0 93.6 DQ679966:299-1493 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. cloacae. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00091 5018 5443 FosA2 0/0 100.0 91.8 EU487198:216-642 An enzyme that confers resistance to fosfomycin in Enterobacter cloacae by breaking the epoxide ring of the molecule. It depends on the cofactors Manganese (II) and Potassium and uses Glutathione (GSH) as the nucleophilic molecule. fosfomycin
contig00135 578 1408 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00108 4367 5048 QnrB17 1/1 100.0 99.1 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00120 1429 2697 tet(A) 1/22 97.8 93.2 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00122 1696 2556 (AGly)aac3-IIa 0/0 100.0 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00006 17148 18290 (Bla)blaACT-9 0/0 100.0 99.1 HQ693810:1009-2151 (Bla)blaACT-9 NA
contig00059 21958 22833 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00135 578 1408 (Bla)blaOXA-1 0/0 100.0 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00091 5018 5443 (Fcyn)FosA2 0/0 100.0 91.8 EU487198:217-642 (Fcyn)FosA2 NA
contig00108 4367 5048 (Flq)qnrB1 1/1 100.0 99.8 DQ351241:1-681 (Flq)qnrB1 NA
contig00120 1429 2725 (Tet)tetA 1/22 100.0 93.3 JX424423:94438-95712 (Tet)tetA NA
contig00120 757 1398 (Tet)tetR 1/9 98.6 93.1 HF545434:53576-54226 (Tet)tetR NA
contig00103 5401 5874 (Tmt)dfrA14 0/0 100.0 100.0 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00122 1696 2556 aac(3)-IIe 0/0 100 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00135 1539 2093 aac(6’)-Ib-D181Y 0/0 100 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00006 17145 18290 blaACT-28 0/0 100 100.0 NG_048614.1 cephalosporin-hydrolyzing class C beta-lactamase ACT-28 CEPHALOSPORIN
contig00059 21958 22833 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00135 578 1408 blaOXA-1 0/0 100 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00103 5401 5874 dfrA14 0/0 100 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00091 5018 5443 fosA 0/0 100 95.1 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00095 902 2521 mcr-10.1 0/0 100 100.0 NG_066767.1 phosphoethanolamine–lipid A transferase MCR-10.1 COLISTIN
contig00108 4404 5048 qnrB1 0/0 100 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00120 1526 2725 tet(A) 0/0 100 100.0 NG_048157.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00122 1696 2556 AAC3 0/0 100.0 99.8 MEG_44 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 NA
contig00080 5981 7174 ACRB 0/0 100.0 93.6 MEG_402 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB NA
contig00006 17145 18392 ACT 0/0 100.0 100.0 MEG_488 Drugs:betalactams:Class_C_betalactamases:ACT NA
contig00103 5401 5874 DFRA 0/0 100.0 99.8 MEG_2517 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00091 5018 5597 FOSA 0/0 99.7 91.5 MEG_2990 Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA NA
contig00135 578 1408 OXA 0/0 100.0 100.0 MEG_4980 Drugs:betalactams:Class_D_betalactamases:OXA NA
contig00108 4367 5048 QNRB 1/1 100.0 99.1 MEG_5928 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRB NA
contig00120 1526 2725 TETA 0/0 100.0 100.0 MEG_7021 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA NA
ID013II
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00077 1696 2556 aac(3)-IIa_1 0/0 100.0 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00079 1540 2139 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00081 126 1090 ant(3’’)-Ia_1 3/7 99.3 99.1 X02340 ant(3’’)-Ia Streptomycin
contig00061 8750 9553 aph(3’’)-Ib_5 0/0 100.0 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00061 7914 8750 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00023 55606 56751 blaCMH-3_1 0/0 100.0 98.6 KX192165 blaCMH-3
contig00061 2636 3511 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00079 579 1409 blaOXA-1_1 0/0 100.0 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00061 6333 7193 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00092 350 1004 catA1_1 0/0 99.2 99.8 V00622 catA1 Chloramphenicol
contig00047 22267 22692 fosA_7 0/0 100.0 95.8 AEXB01000013 fosA Fosfomycin
contig00061 9614 10429 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00077 1696 2556 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00079 1540 2139 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00081 126 1090 ANT(3’’)-IIa 3/7 99.3 99.1 X02340.1:222-1194 ANT(3’’)-IIa is a aminoglycoside nucleotidyltransferase identified in Acinetobacter spp. via horizontal gene transfer mechanisms. aminoglycoside
contig00061 8750 9553 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00061 7914 8750 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00092 350 1004 catI 0/0 99.2 99.8 V00622:243-903 catI is a chromosome and transposon-encoded variant of the cat gene found in Escherichia coli and Acinetobacter baumannii phenicol
contig00023 55606 56751 CMH-1 0/0 100.0 98.7 JQ673557.1:0-1146 CMH-1 is a class C beta-lactamase gene found in Enterobacter cloacae. cephalosporin
contig00061 2636 3511 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00028 11129 12322 Enterobacter_cloacae_acrA 0/0 100.0 91.5 DQ679966:299-1493 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. cloacae. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00047 22267 22692 FosA2 0/0 100.0 92.0 EU487198:216-642 An enzyme that confers resistance to fosfomycin in Enterobacter cloacae by breaking the epoxide ring of the molecule. It depends on the cofactors Manganese (II) and Potassium and uses Glutathione (GSH) as the nucleophilic molecule. fosfomycin
contig00079 579 1409 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00051 21006 21380 ramA 0/0 100.0 98.1 JQ727668:0-375 RamA (resistance antibiotic multiple) is a positive regulator of AcrAB-TolC and leads to high level multidrug resistance in Klebsiella pneumoniae Salmonella enterica and Enterobacter aerugenes increasing the expression of both the mar operon as well as AcrAB. RamA also decreases OmpF expression. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig00061 9614 10429 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00061 6333 7193 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00077 1696 2556 (AGly)aac3-IIa 0/0 100.0 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00081 126 937 (AGly)aadA1-pm 0/0 97.7 99.9 JQ690540:7968-8798 (AGly)aadA1-pm NA
contig00061 8750 9553 (AGly)strA 0/0 100.0 99.9 AB366441:22458-23261 (AGly)strA NA
contig00061 7914 8750 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00023 55606 56751 (Bla)blaCMH-1 0/0 100.0 98.7 JQ673557:1-1146 (Bla)blaCMH-1 NA
contig00061 2636 3511 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00079 579 1409 (Bla)blaOXA-1 0/0 100.0 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00061 6333 7193 (Bla)blaTEM-105 0/0 100.0 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00047 22267 22692 (Fcyn)FosA2 0/0 100.0 92.0 EU487198:217-642 (Fcyn)FosA2 NA
contig00092 350 1004 (Phe)catA1 0/0 99.2 99.8 V00622:244-903 (Phe)catA1 NA
contig00061 9614 10429 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00077 1696 2556 aac(3)-IIe 0/0 100.0 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00079 1540 2094 aac(6’)-Ib-D181Y 0/0 100.0 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00081 126 917 aadA1 0/0 100.0 100.0 NG_052536.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00061 8750 9577 aph(3’’)-Ib 0/0 100.0 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00061 7914 8750 aph(6)-Id 0/0 100.0 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00023 55606 56751 blaCMH-6 0/0 100.0 99.9 NG_067134.1 class C beta-lactamase CMH-6 BETA-LACTAM
contig00061 2636 3511 blaCTX-M-15 0/0 100.0 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00079 579 1409 blaOXA-1 0/0 100.0 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00061 6333 7193 blaTEM-1 0/0 100.0 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00092 350 1004 catA1 0/0 99.2 99.8 NG_047582.1 type A-1 chloramphenicol O-acetyltransferase CHLORAMPHENICOL
contig00047 22267 22692 fosA 0/0 100.0 95.1 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00061 9614 10429 sul2 0/0 100.0 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00077 1696 2556 AAC3 0/0 100.0 99.8 MEG_44 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 NA
contig00028 11129 12322 ACRB 0/0 100.0 91.5 MEG_402 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB NA
contig00081 126 1090 ANT3-DPRIME 3/7 99.3 99.1 MEG_949 Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME NA
contig00061 8750 9577 APH3-DPRIME 0/0 100.0 100.0 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00061 7914 8750 APH6 0/0 100.0 100.0 MEG_1086 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00092 339 1004 CATA 0/0 99.2 100.0 MEG_1593 Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA NA
contig00023 55606 56751 CMH 0/0 100.0 98.7 MEG_1753 Drugs:betalactams:Class_C_betalactamases:CMH NA
contig00036 27997 28939 CTX 0/0 100.0 98.8 MEG_2435 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00047 22113 22692 FOSA 0/0 99.7 92.8 MEG_2990 Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA NA
contig00079 579 1409 OXA 0/0 100.0 100.0 MEG_4980 Drugs:betalactams:Class_D_betalactamases:OXA NA
contig00051 21006 21380 RAMA 0/0 100.0 98.1 MEG_6044 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:RAMA NA
contig00061 9614 10429 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00061 5966 7211 TEM 0/0 98.3 99.4 MEG_6875 Drugs:betalactams:Class_A_betalactamases:TEM NA
ID038
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00094 1696 2556 aac(3)-IIa_1 0/0 100.0 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00097 1539 2138 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00067 8750 9553 aph(3’’)-Ib_5 0/0 100.0 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00067 7914 8750 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00046 19262 20407 blaACT-7_1 0/0 100.0 99.6 FJ237368 blaACT-7
contig00067 2636 3511 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00097 578 1408 blaOXA-1_1 0/0 100.0 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00067 6333 7193 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00105 223 877 catA1_1 0/0 99.2 99.8 V00622 catA1 Chloramphenicol
contig00084 673 1146 dfrA1_10 0/0 100.0 99.8 AF203818 dfrA1 Trimethoprim
contig00072 5401 5883 dfrA14_5 0/0 100.0 99.6 DQ388123 dfrA14 Trimethoprim
contig00040 5370 5795 fosA_7 0/0 100.0 98.1 AEXB01000013 fosA Fosfomycin
contig00073 4404 5048 qnrB1_1 0/0 100.0 100.0 DQ351241 qnrB1 Ciprofloxacin
contig00079 3556 4422 sul1_5 0/0 100.0 99.9 EU780013 sul1 Sulfamethoxazole
contig00067 9614 10429 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00085 1430 2698 tet(A)_6 1/22 97.8 93.2 AF534183 tet(A) Doxycycline, Tetracycline
contig00086 1712 2958 tet(A)_6 0/0 97.8 100.0 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00094 1696 2556 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00097 1539 2138 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00046 19262 20407 ACT-35 0/0 100.0 99.7 LC004922:0-1146 ACT-35 is a beta-lactamase. From the Lahey list of ACT beta-lactamases. carbapenem, cephalosporin, cephamycin, penam
contig00067 8750 9553 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00067 7914 8750 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00105 223 877 catI 0/0 99.2 99.8 V00622:243-903 catI is a chromosome and transposon-encoded variant of the cat gene found in Escherichia coli and Acinetobacter baumannii phenicol
contig00067 2636 3511 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00084 673 1146 dfrA1 0/0 100.0 100.0 KJ541681.1:19526-20000 dfrA1 is an integron-encoded dihydrofolate reductase diaminopyrimidine
contig00072 5401 5883 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00040 5370 5795 FosA2 0/0 100.0 92.7 EU487198:216-642 An enzyme that confers resistance to fosfomycin in Enterobacter cloacae by breaking the epoxide ring of the molecule. It depends on the cofactors Manganese (II) and Potassium and uses Glutathione (GSH) as the nucleophilic molecule. fosfomycin
contig00097 578 1408 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00073 4367 5048 QnrB17 1/1 100.0 99.1 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00079 3556 4395 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00067 9614 10429 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00067 6333 7193 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00085 1430 2698 tet(A) 1/22 97.8 93.2 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
contig00086 1712 2958 tet(A) 0/0 97.8 100.0 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00094 1696 2556 (AGly)aac3-IIa 0/0 100.0 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00067 8750 9553 (AGly)strA 0/0 100.0 99.9 AB366441:22458-23261 (AGly)strA NA
contig00067 7914 8750 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00046 19262 20407 (Bla)blaACT-7 0/0 100.0 99.6 FJ237368:1-1146 (Bla)blaACT-7 NA
contig00067 2636 3511 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00097 578 1408 (Bla)blaOXA-1 0/0 100.0 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00067 6333 7193 (Bla)blaTEM-105 0/0 100.0 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00040 5370 5795 (Fcyn)FosA2 0/0 100.0 92.7 EU487198:217-642 (Fcyn)FosA2 NA
contig00073 4367 5048 (Flq)qnrB1 1/1 100.0 99.8 DQ351241:1-681 (Flq)qnrB1 NA
contig00105 223 877 (Phe)catA1 0/0 99.2 99.8 V00622:244-903 (Phe)catA1 NA
contig00079 3556 4395 (Sul)sul1 0/0 100.0 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00067 9614 10429 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00085 1430 2726 (Tet)tetA 1/22 100.0 93.3 JX424423:94438-95712 (Tet)tetA NA
contig00086 1684 2958 (Tet)tetA 0/0 100.0 100.0 JX424423:94438-95712 (Tet)tetA NA
contig00085 758 1399 (Tet)tetR 1/9 98.6 93.1 HF545434:53576-54226 (Tet)tetR NA
contig00086 2989 3639 (Tet)tetR 0/0 100.0 100.0 HF545434:53576-54226 (Tet)tetR NA
contig00084 673 1146 (Tmt)dfrA1 0/0 100.0 99.8 JQ794607:474 (Tmt)dfrA1 NA
contig00072 5401 5874 (Tmt)dfrA14 0/0 100.0 100.0 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00094 1696 2556 aac(3)-IIe 0/0 100.0 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00097 1539 2093 aac(6’)-Ib-D181Y 0/0 100.0 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00067 8750 9577 aph(3’’)-Ib 0/0 100.0 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00067 7914 8750 aph(6)-Id 0/0 100.0 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00046 19262 20407 blaACT-73 0/0 100.0 99.9 NG_066689.1 cephalosporin-hydrolyzing class C beta-lactamase ACT-73 CEPHALOSPORIN
contig00067 2636 3511 blaCTX-M-15 0/0 100.0 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00097 578 1408 blaOXA-1 0/0 100.0 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00067 6333 7193 blaTEM-1 0/0 100.0 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00105 223 877 catA1 0/0 99.2 99.8 NG_047582.1 type A-1 chloramphenicol O-acetyltransferase CHLORAMPHENICOL
contig00084 673 1146 dfrA1 0/0 100.0 99.8 NG_047677.1 trimethoprim-resistant dihydrofolate reductase DfrA1 TRIMETHOPRIM
contig00072 5401 5874 dfrA14 0/0 100.0 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00040 5370 5795 fosA 0/0 100.0 97.4 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00073 4404 5048 qnrB1 0/0 100.0 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00079 3556 4395 sul1 0/0 100.0 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00067 9614 10429 sul2 0/0 100.0 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00085 1527 2726 tet(A) 0/0 100.0 100.0 NG_048157.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
contig00086 1684 2883 tet(A) 0/0 100.0 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00094 1696 2556 AAC3 0/0 100.0 99.8 MEG_44 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 NA
contig00046 18872 19103 ACT 0/0 100.0 97.0 MEG_497 Drugs:betalactams:Class_C_betalactamases:ACT NA
contig00046 19263 20509 ACT 0/0 100.0 99.4 MEG_491 Drugs:betalactams:Class_C_betalactamases:ACT NA
contig00067 8750 9577 APH3-DPRIME 0/0 100.0 100.0 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00067 7914 8750 APH6 0/0 100.0 100.0 MEG_1086 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00105 212 877 CATA 0/0 99.2 100.0 MEG_1593 Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA NA
contig00052 16991 17933 CTX 0/0 100.0 95.7 MEG_2435 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00072 5401 5874 DFRA 0/0 100.0 99.8 MEG_2517 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00084 673 1146 DFRA 0/0 100.0 99.8 MEG_2528 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00040 5370 5795 FOSA 0/0 100.0 98.1 MEG_2999 Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA NA
contig00097 578 1408 OXA 0/0 100.0 100.0 MEG_4980 Drugs:betalactams:Class_D_betalactamases:OXA NA
contig00073 4367 5048 QNRB 1/1 100.0 99.1 MEG_5928 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRB NA
contig00079 3429 4396 SULI 0/0 100.0 100.0 MEG_6615 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI NA
contig00067 9614 10429 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00067 5966 7211 TEM 0/0 98.3 99.4 MEG_6875 Drugs:betalactams:Class_A_betalactamases:TEM NA
contig00085 1527 2726 TETA 0/0 100.0 100.0 MEG_7021 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA NA
contig00086 1684 2958 TETA 0/0 100.0 100.0 MEG_7024 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA NA
ID086II
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00091 1696 2556 aac(3)-IIa_1 0/0 100.0 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00095 1539 2138 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00100 462 1426 ant(3’’)-Ia_1 3/7 99.3 99.1 X02340 ant(3’’)-Ia Streptomycin
contig00056 8750 9553 aph(3’’)-Ib_5 0/0 100.0 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00056 7914 8750 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00036 19316 20454 blaACT-16_1 0/0 99.9 99.5 AB737978 blaACT-16
contig00056 2636 3511 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00095 578 1408 blaOXA-1_1 0/0 100.0 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00056 6333 7193 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00102 350 1004 catA1_1 0/0 99.2 99.8 V00622 catA1 Chloramphenicol
contig00074 5401 5883 dfrA14_5 0/0 100.0 99.6 DQ388123 dfrA14 Trimethoprim
contig00064 6965 7390 fosA_1 0/0 100.0 96.0 M85195 fosA Fosfomycin
contig00076 4405 5049 qnrB1_1 0/0 100.0 100.0 DQ351241 qnrB1 Ciprofloxacin
contig00056 9614 10429 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00083 1429 2697 tet(A)_6 1/22 97.8 93.2 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00091 1696 2556 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00095 1539 2138 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00036 19309 20454 ACT-25 0/0 100.0 100.0 KJ207208:539-1685 ACT-25 is a beta-lactamase. From the Lahey list of ACT beta-lactamases. carbapenem, cephalosporin, cephamycin, penam
contig00100 462 1426 ANT(3’’)-IIa 3/7 99.3 99.1 X02340.1:222-1194 ANT(3’’)-IIa is a aminoglycoside nucleotidyltransferase identified in Acinetobacter spp. via horizontal gene transfer mechanisms. aminoglycoside
contig00056 8750 9553 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00056 7914 8750 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00102 350 1004 catI 0/0 99.2 99.8 V00622:243-903 catI is a chromosome and transposon-encoded variant of the cat gene found in Escherichia coli and Acinetobacter baumannii phenicol
contig00056 2636 3511 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00074 5401 5883 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00064 6965 7390 FosA2 0/0 100.0 92.5 EU487198:216-642 An enzyme that confers resistance to fosfomycin in Enterobacter cloacae by breaking the epoxide ring of the molecule. It depends on the cofactors Manganese (II) and Potassium and uses Glutathione (GSH) as the nucleophilic molecule. fosfomycin
contig00095 578 1408 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00076 4368 5049 QnrB17 1/1 100.0 99.1 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00056 9614 10429 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00056 6333 7193 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00083 1429 2697 tet(A) 1/22 97.8 93.2 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00091 1696 2556 (AGly)aac3-IIa 0/0 100.0 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00100 462 1273 (AGly)aadA1-pm 0/0 97.7 99.9 JQ690540:7968-8798 (AGly)aadA1-pm NA
contig00056 8750 9553 (AGly)strA 0/0 100.0 99.9 AB366441:22458-23261 (AGly)strA NA
contig00056 7914 8750 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00036 19309 20454 (Bla)blaACT-16 0/0 100.0 99.7 :NG_050702 (Bla)blaACT-16 NA
contig00056 2636 3511 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00095 578 1408 (Bla)blaOXA-1 0/0 100.0 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00056 6333 7193 (Bla)blaTEM-105 0/0 100.0 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00064 6965 7390 (Fcyn)FosA2 0/0 100.0 92.5 EU487198:217-642 (Fcyn)FosA2 NA
contig00076 4368 5049 (Flq)qnrB1 1/1 100.0 99.8 DQ351241:1-681 (Flq)qnrB1 NA
contig00102 350 1004 (Phe)catA1 0/0 99.2 99.8 V00622:244-903 (Phe)catA1 NA
contig00056 9614 10429 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00083 1429 2725 (Tet)tetA 1/22 100.0 93.3 JX424423:94438-95712 (Tet)tetA NA
contig00083 757 1398 (Tet)tetR 1/9 98.6 93.1 HF545434:53576-54226 (Tet)tetR NA
contig00074 5401 5874 (Tmt)dfrA14 0/0 100.0 100.0 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00091 1696 2556 aac(3)-IIe 0/0 100.0 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00095 1539 2093 aac(6’)-Ib-D181Y 0/0 100.0 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00100 462 1253 aadA1 0/0 100.0 100.0 NG_052536.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00056 8750 9577 aph(3’’)-Ib 0/0 100.0 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00056 7914 8750 aph(6)-Id 0/0 100.0 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00036 19309 20454 blaACT-25 0/0 100.0 100.0 NG_048612.1 cephalosporin-hydrolyzing class C beta-lactamase ACT-25 CEPHALOSPORIN
contig00056 2636 3511 blaCTX-M-15 0/0 100.0 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00095 578 1408 blaOXA-1 0/0 100.0 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00056 6333 7193 blaTEM-1 0/0 100.0 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00102 350 1004 catA1 0/0 99.2 99.8 NG_047582.1 type A-1 chloramphenicol O-acetyltransferase CHLORAMPHENICOL
contig00074 5401 5874 dfrA14 0/0 100.0 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00064 6965 7390 fosA 0/0 100.0 96.0 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00076 4405 5049 qnrB1 0/0 100.0 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00056 9614 10429 sul2 0/0 100.0 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00083 1526 2725 tet(A) 0/0 100.0 100.0 NG_048157.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00091 1696 2556 AAC3 0/0 100.0 99.8 MEG_44 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 NA
contig00036 18919 19150 ACT 0/0 100.0 96.5 MEG_497 Drugs:betalactams:Class_C_betalactamases:ACT NA
contig00036 19310 20556 ACT 0/0 100.0 100.0 MEG_490 Drugs:betalactams:Class_C_betalactamases:ACT NA
contig00100 462 1426 ANT3-DPRIME 3/7 99.3 99.1 MEG_949 Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME NA
contig00056 8750 9577 APH3-DPRIME 0/0 100.0 100.0 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00056 7914 8750 APH6 0/0 100.0 100.0 MEG_1086 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00102 339 1004 CATA 0/0 99.2 100.0 MEG_1593 Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA NA
contig00008 149242 150130 CTX 0/0 100.0 95.7 MEG_2430 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00051 18608 19550 CTX 0/0 100.0 98.8 MEG_2435 Drugs:betalactams:Class_A_betalactamases:CTX NA
contig00074 5401 5874 DFRA 0/0 100.0 99.8 MEG_2517 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00064 6965 7546 FOSA 0/0 100.0 93.1 MEG_2990 Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA NA
contig00095 578 1408 OXA 0/0 100.0 100.0 MEG_4980 Drugs:betalactams:Class_D_betalactamases:OXA NA
contig00076 4368 5049 QNRB 1/1 100.0 99.1 MEG_5928 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRB NA
contig00056 9614 10429 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00056 5966 7211 TEM 0/0 98.3 99.4 MEG_6875 Drugs:betalactams:Class_A_betalactamases:TEM NA
contig00083 1526 2725 TETA 0/0 100.0 100.0 MEG_7021 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA NA
ID086
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00047 1505 2293 aadA5_1 0/0 100.0 100.0 AF137361 aadA5 Streptomycin
contig00065 963 1766 aph(3’’)-Ib_5 0/0 100.0 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00065 127 963 aph(6)-Id_1 0/0 100.0 99.9 M28829 aph(6)-Id Streptomycin
contig00018 79503 80378 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00029 233 1093 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00090 936 1409 dfrA1_10 0/0 100.0 99.8 AF203818 dfrA1 Trimethoprim
contig00047 901 1374 dfrA17_1 0/0 100.0 100.0 FJ460238 dfrA17 Trimethoprim
contig00001 29920 31152 mdf(A)_1 0/0 100.0 97.8 Y08743 mdf(A)
contig00096 53 974 mph(A)_2 1/1 100.0 99.7 U36578 mph(A) Erythromycin, Azithromycin, Spiramycin, Telithromycin
contig00047 2813 3679 sul1_5 0/0 100.0 99.9 EU780013 sul1 Sulfamethoxazole
contig00065 1827 2642 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00062 643 1889 tet(A)_6 0/0 97.8 100.0 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00047 1505 2293 aadA5 0/0 100.0 100.0 AF137361:63-852 aadA5 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids transposons and integrons in E. coli K. pneumoniae Kluyvera georgiana P. aeruginosa and E. cloacae aminoglycoside
contig00001 411017 414166 acrB 0/0 100.0 98.8 U00096.3:484403-481253 Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00009 127154 130267 acrD 0/0 100.0 98.7 AP009048.1:2586250-2589364 AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. aminoglycoside
contig00004 325108 326265 acrE 0/0 100.0 98.8 U00096:3413863-3415021 AcrE is a membrane fusion protein similar to AcrA. cephalosporin, cephamycin, fluoroquinolone, penam
contig00004 326277 329381 acrF 0/0 100.0 96.6 U00096:3415032-3418137 AcrF is a inner membrane transporter similar to AcrB. cephalosporin, cephamycin, fluoroquinolone, penam
contig00004 324047 324709 acrS 0/0 100.0 98.3 U00096:3413465-3412802 AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00065 963 1766 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00065 127 963 APH(6)-Id 0/0 100.0 99.8 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00004 122577 123396 bacA 0/0 99.8 98.3 U00096.3:3204131-3203309 The bacA gene product (BacA) recycles undecaprenyl pyrophosphate during cell wall biosynthesis which confers resistance to bacitracin. peptide
contig00006 197426 198147 baeR 0/0 99.9 97.1 AP009048.1:2166412-2167135 BaeR is a response regulator that promotes the expression of MdtABC and AcrD efflux complexes. aminocoumarin, aminoglycoside
contig00006 198144 199547 baeS 0/0 100.0 90.6 AP009048:2165012-2166416 BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. aminocoumarin, aminoglycoside
contig00013 96361 97734 cpxA 0/0 100.0 98.5 BA000007.3:4905062-4903688 CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. aminocoumarin, aminoglycoside
contig00010 15089 15721 CRP 0/0 100.0 99.2 AP009048.1:4154296-4153663 CRP is a global regulator that represses MdtEF multidrug efflux pump expression. fluoroquinolone, macrolide, penam
contig00018 79503 80378 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00090 936 1409 dfrA1 0/0 100.0 100.0 KJ541681.1:19526-20000 dfrA1 is an integron-encoded dihydrofolate reductase diaminopyrimidine
contig00047 901 1374 dfrA17 0/0 100.0 100.0 DQ838665:0-474 dfrA17 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00011 47795 48967 emrA 0/0 100.0 98.0 AP009048:2810082-2811255 EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. fluoroquinolone
contig00011 48984 50522 emrB 0/0 100.0 98.4 U00096:2812615-2814154 emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. fluoroquinolone
contig00009 222982 224037 emrK 0/0 100.0 97.7 D78168:536-1592 emrK is a membrane fusion protein that is a homolog of EmrA. Together with the inner membrane transporter EmrY and the outer membrane channel TolC it mediates multidrug efflux. tetracycline
contig00011 47138 47668 emrR 0/0 100.0 98.5 U00096.3:2810769-2811300 EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. fluoroquinolone
contig00009 224037 225575 emrY 0/0 100.0 97.7 D78168:1591-3130 emrY is a multidrug transport that moves substrates across the inner membrane of the Gram-negative E. coli. It is a homolog of emrB. tetracycline
contig00002 146370 148013 eptA 0/0 100.0 91.3 AP009048:4340268-4338624 PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. peptide
contig00001 409801 410994 Escherichia_coli_acrA 0/0 100.0 99.1 U00096.3:485619-484425 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00002 203855 204988 Escherichia_coli_ampC 0/0 100.0 97.8 U00096.3:4378944-4377810 A class C ampC beta-lactamase (cephalosporinase) enzyme described in Escherichia coli shown clinically to confer resistance to penicillin-like and cephalosporin-class antibiotics. cephalosporin, penam
contig00001 498903 500060 Escherichia_coli_ampH 0/0 100.0 97.1 AP012030.1:396711-395553 AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. cephalosporin, penam
contig00003 272579 272911 Escherichia_coli_emrE 0/0 100.0 92.2 Z11877.1:485-818 Member of the small MDR (multidrug resistance) family of transporters, in Escherichia coli this protein provides resistance against a number of positively charged compounds including ethidium bromide and erythromycin, proton-dependent secondary transporter which exchanges protons for compound translocation macrolide
contig00001 29920 31152 Escherichia_coli_mdfA 0/0 100.0 96.3 JQ394987:0-1233 Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. benzalkonium_chloride, rhodamine, tetracycline
contig00009 221844 222458 evgA 0/0 100.0 99.0 BA000007.3:3212025-3212640 EvgA when phosphorylated is a positive regulator for efflux protein complexes emrKY and mdtEF. While usually phosphorylated in a EvgS dependent manner it can be phosphorylated in the absence of EvgS when overexpressed. fluoroquinolone, macrolide, penam, tetracycline
contig00009 218246 221839 evgS 0/0 100.0 96.3 U00096:2484373-2487967 EvgS is a sensor protein that phosphorylates the regulatory protein EvgA. evgS corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. fluoroquinolone, macrolide, penam, tetracycline
contig00010 188711 189439 gadW 0/0 100.0 99.9 CP015085.1:2552440-2551711 GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. fluoroquinolone, macrolide, penam
contig00010 189808 190632 gadX 0/0 100.0 93.7 AP009048.1:3974604-3975429 GadX is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. fluoroquinolone, macrolide, penam
contig00008 129837 130250 H-NS 0/0 100.0 99.3 BA000007.3:1738104-1737690 H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline
contig00001 185274 185946 kdpE 0/0 99.3 95.5 U00096.3:721733-721055 kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. aminoglycoside
contig00017 29610 29993 marA 0/0 100.0 99.0 AP009048.1:1621287-1621671 In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig00006 207160 208407 mdtA 0/0 100.0 95.8 U00096:2154015-2155263 MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. aminocoumarin
contig00006 204038 207160 mdtB 0/0 100.0 96.1 U00096:2155262-2158385 MdtB is a transporter that forms a heteromultimer complex with MdtC to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. aminocoumarin
contig00006 200960 204037 mdtC 0/0 100.0 94.0 U00096:2158385-2161463 MdtC is a transporter that forms a heteromultimer complex with MdtB to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. In the absence of MdtB MdtC can form a homomultimer complex that results in a functioning efflux complex with a narrower drug specificity. mdtC corresponds to 3 loci in Pseudomonas aeruginosa PAO1 (gene name: muxC/muxB) and 3 loci in Pseudomonas aeruginosa LESB58. aminocoumarin
contig00010 184053 185210 mdtE 0/0 100.0 98.3 AP009048.1:3981183-3980025 MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. fluoroquinolone, macrolide, penam
contig00010 185235 188348 mdtF 0/0 100.0 97.1 U00096:3660413-3663527 MdtF is the multidrug inner membrane transporter for the MdtEF-TolC efflux complex. fluoroquinolone, macrolide, penam
contig00007 89449 90675 mdtG 0/0 100.0 98.4 CP000800.1:1192954-1191727 The MdtG protein also named YceE appears to be a member of the major facilitator superfamily of transporters and it has been reported when overexpressed to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon. fosfomycin
contig00007 79611 80819 mdtH 0/0 100.0 98.3 U00096:1125326-1124117 Multidrug resistance protein MdtH fluoroquinolone
contig00028 261 1472 mdtM 0/0 98.3 95.5 U00096.3:4568519-4567286 Multidrug resistance protein MdtM acridine_dye, fluoroquinolone, lincosamide, nucleoside, phenicol
contig00002 116125 117156 mdtN 0/0 100.0 96.3 AP009048.1:4307588-4306556 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. acridine_dye, nucleoside
contig00002 114074 116125 mdtO 0/0 100.0 97.2 AP009048.1:4306557-4304505 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00002 112611 114077 mdtP 0/0 100.0 98.1 AP009048.1:4304509-4303042 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00096 69 974 mphA 0/0 100.0 100.0 D16251.1:2531-1625 The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. macrolide
contig00007 215331 217079 msbA 0/0 100.0 98.1 U00096.3:966620-968369 MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. nitroimidazole
contig00019 2059 3027 pmrF 0/0 100.0 97.6 U00096:2367070-2368039 PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. peptide
contig00047 2840 3679 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00065 1827 2642 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00029 233 1093 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00062 643 1889 tet(A) 0/0 97.8 100.0 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
contig00004 98687 100174 tolC 0/0 100.0 98.2 FJ768952:0-1488 TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan
contig00006 262232 263398 ugd 0/0 100.0 100.0 U00096:2099613-2098446 PmrE is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin peptide
contig00006 56177 57820 yojI 0/0 100.0 97.3 U00096.3:2308615-2306971 YojI mediates resistance to the peptide antibiotic microcin J25 when it is expressed from a multicopy vector. YojI is capable of pumping out microcin molecules. The outer membrane protein TolC in addition to YojI is required for export of microcin J25 out of the cell. Microcin J25 is thus the first known substrate for YojI. peptide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00090 52 853 (AGly)aadA1-pm 0/0 96.5 99.9 JQ690540:7968-8798 (AGly)aadA1-pm NA
contig00047 1505 2293 (AGly)aadA5 0/0 100.0 100.0 AF137361:64-852 (AGly)aadA5 NA
contig00065 963 1766 (AGly)strA 0/0 100.0 99.9 AB366441:22458-23261 (AGly)strA NA
contig00065 127 963 (AGly)strB 0/0 100.0 99.9 FJ474091:264-1100 (AGly)strB NA
contig00002 203855 204988 (Bla)AmpC2_Ecoli 0/0 100.0 97.8 CP002970:332756-333889 (Bla)AmpC2_Ecoli NA
contig00001 498903 500060 (Bla)ampH_Ecoli 0/0 100.0 97.1 AP012030:395554-396711 (Bla)ampH_Ecoli NA
contig00018 79503 80378 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00029 233 1093 (Bla)blaTEM-105 0/0 100.0 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00001 244491 246392 (Bla)Penicillin_Binding_Protein_Ecoli 0/0 100.0 98.7 CP002291:664439-666340 (Bla)Penicillin_Binding_Protein_Ecoli NA
contig00096 69 974 (MLS)mph(A) 0/0 100.0 100.0 DQ445270:1626-2531 (MLS)mph(A) NA
contig00047 2840 3679 (Sul)sul1 0/0 100.0 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00065 1827 2642 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00062 643 1917 (Tet)tetA 0/0 100.0 100.0 JX424423:94438-95712 (Tet)tetA NA
contig00062 1 612 (Tet)tetR 1/24 94.0 96.2 HF545434:53576-54226 (Tet)tetR NA
contig00090 936 1409 (Tmt)dfrA1 0/0 100.0 99.8 JQ794607:474 (Tmt)dfrA1 NA
contig00047 901 1374 (Tmt)dfrA17 0/0 100.0 100.0 AB126604:98-571 (Tmt)dfrA17 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00090 52 843 aadA1 0/0 100 99.9 NG_052230.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00047 1505 2293 aadA5 0/0 100 100.0 NG_047357.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA5 STREPTOMYCIN
contig00065 963 1790 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00065 127 963 aph(6)-Id 0/0 100 100.0 NG_047466.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00018 79503 80378 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00002 203855 204988 blaEC-5 0/0 100 99.5 NG_049085.1 cephalosporin-hydrolyzing class C beta-lactamase EC-5 CEPHALOSPORIN
contig00029 233 1093 blaTEM-1 0/0 100 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00090 936 1409 dfrA1 0/0 100 99.8 NG_047677.1 trimethoprim-resistant dihydrofolate reductase DfrA1 TRIMETHOPRIM
contig00047 901 1374 dfrA17 0/0 100 99.8 NG_047710.1 trimethoprim-resistant dihydrofolate reductase DfrA17 TRIMETHOPRIM
contig00096 53 974 mph(A) 1/1 100 99.7 NG_047986.1 Mph(A) family macrolide 2’-phosphotransferase MACROLIDE
contig00047 2840 3679 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00065 1827 2642 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00062 718 1917 tet(A) 0/0 100 100.0 NG_048154.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00001 409801 410994 ACRA 0/0 100.0 99.1 MEG_399 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA NA
contig00001 411017 414166 ACRB 0/0 100.0 98.8 MEG_401 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB NA
contig00009 127154 130267 ACRD 0/0 100.0 98.7 MEG_407 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ACRD NA
contig00004 325108 326265 ACRE 0/0 100.0 98.8 MEG_408 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRE NA
contig00004 326277 329381 ACRF 0/0 100.0 96.6 MEG_409 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRF NA
contig00004 324047 324709 ACRS 0/0 100.0 98.3 MEG_415 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ACRS NA
contig00001 498903 500060 AMPH 0/0 100.0 97.1 MEG_729 Drugs:betalactams:Penicillin_binding_protein:AMPH NA
contig00047 1505 2293 ANT3-DPRIME 0/0 100.0 100.0 MEG_928 Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME NA
contig00090 52 853 ANT3-DPRIME 0/0 96.5 99.9 MEG_915 Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME NA
contig00065 963 1790 APH3-DPRIME 0/0 100.0 100.0 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00065 127 963 APH6 0/0 100.0 100.0 MEG_1084 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00006 220734 222586 ASMA 0/0 100.0 97.8 MEG_1180 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA NA
contig00004 122577 123396 BACA 0/0 99.8 98.5 MEG_1189 Drugs:Bacitracin:Undecaprenyl_pyrophosphate_phosphatase:BACA NA
contig00006 197426 198147 BAER 0/0 99.9 97.1 MEG_1192 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAER NA
contig00006 198144 199547 BAES 0/0 100.0 90.6 MEG_1193 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAES NA
contig00006 81453 82643 BCR 0/0 100.0 96.6 MEG_1210 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:BCR NA
contig00002 203855 204988 BLAEC 0/0 100.0 99.5 MEG_1275 Drugs:betalactams:Class_C_betalactamases:BLAEC NA
contig00013 95666 96364 CPXAR 0/0 100.0 97.8 MEG_2118 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00013 96361 97734 CPXAR 0/0 100.0 98.9 MEG_2121 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00010 15089 15721 CRP 0/0 100.0 99.2 MEG_2132 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CRP NA
contig00047 901 1374 DFRA 0/0 100.0 100.0 MEG_2547 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00090 936 1409 DFRA 0/0 100.0 99.8 MEG_2528 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00011 47795 48967 EMRA 0/0 100.0 98.0 MEG_2722 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRA NA
contig00011 48984 50522 EMRB 0/0 100.0 98.4 MEG_2725 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRB NA
contig00016 22543 23733 EMRD 0/0 100.0 97.6 MEG_2729 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRD NA
contig00009 222874 224037 EMRK 0/0 100.0 97.4 MEG_2732 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRK NA
contig00011 47138 47668 EMRR 0/0 100.0 98.5 MEG_2734 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EMRR NA
contig00009 224037 225575 EMRY 0/0 100.0 97.7 MEG_2736 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRY NA
contig00002 146370 148013 EPTA 0/0 100.0 91.3 MEG_2739 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:EPTA NA
contig00009 218246 221839 EVGS 0/0 100.0 97.4 MEG_2869 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EVGS NA
contig00010 188711 189439 GADW 0/0 100.0 99.9 MEG_3082 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADW NA
contig00010 189808 190632 GADX 0/0 100.0 93.7 MEG_3083 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADX NA
contig00008 129837 130250 HNS 0/0 100.0 99.3 MEG_3271 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_pumps:HNS NA
contig00001 185274 185946 KDPE 0/0 99.3 95.5 MEG_3448 Drugs:Aminoglycosides:Aminoglycoside_efflux_pumps:KDPE NA
contig00017 29604 29993 MARA 0/0 100.0 99.0 MEG_3662 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARA NA
contig00017 29155 29589 MARR 0/0 100.0 97.9 MEG_3663 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARR NA
contig00001 29920 31152 MDFA 0/0 100.0 97.9 MEG_3737 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDFA NA
contig00006 207160 208407 MDTA 0/0 100.0 95.8 MEG_3746 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTA NA
contig00006 204038 207160 MDTB 0/0 100.0 96.1 MEG_3747 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTB NA
contig00006 200960 204037 MDTC 0/0 100.0 94.0 MEG_3749 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTC NA
contig00010 184053 185210 MDTE 0/0 100.0 98.3 MEG_3751 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTE NA
contig00010 185235 188348 MDTF 0/0 100.0 97.1 MEG_3752 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTF NA
contig00007 89449 90675 MDTG 0/0 100.0 98.5 MEG_3753 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTG NA
contig00007 79611 80819 MDTH 0/0 100.0 98.3 MEG_3755 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTH NA
contig00017 60558 60887 MDTI 0/0 100.0 98.8 MEG_3756 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTI NA
contig00017 60874 61239 MDTJ 0/0 100.0 98.4 MEG_3757 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTJ NA
contig00003 13420 14792 MDTK 0/0 99.9 97.7 MEG_3759 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MDTK NA
contig00028 261 1472 MDTM 0/0 98.3 95.5 MEG_3761 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTM NA
contig00002 116125 117156 MDTN 0/0 100.0 96.3 MEG_3763 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTN NA
contig00002 114074 116125 MDTO 0/0 100.0 97.2 MEG_3764 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTO NA
contig00002 112611 114077 MDTP 0/0 100.0 98.1 MEG_3765 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTP NA
contig00096 53 974 MPHA 1/1 100.0 99.7 MEG_4030 Drugs:MLS:Macrolide_phosphotransferases:MPHA NA
contig00007 215331 217079 MSBA 0/0 100.0 98.1 MEG_4061 Drugs:Multi-drug_resistance:Multi-drug_ABC_efflux_pumps:MSBA NA
contig00003 272579 272911 MVRC 0/0 100.0 92.2 MEG_4103 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MVRC NA
contig00001 244491 246392 PBP2 0/0 100.0 98.7 MEG_5400 Drugs:betalactams:Penicillin_binding_protein:PBP2 NA
contig00019 2059 3027 PMRF 0/0 100.0 97.6 MEG_5801 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:PMRF NA
contig00005 47049 47918 ROBA 0/0 100.0 99.7 MEG_6082 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ROBA NA
contig00002 84258 84580 SOXS 0/0 99.7 98.1 MEG_6551 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_resistance_regulator:SOXS NA
contig00047 2839 3806 SULI 0/0 100.0 100.0 MEG_6615 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI NA
contig00065 1827 2642 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00062 643 1917 TETA 0/0 100.0 100.0 MEG_7024 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA NA
contig00006 262232 263398 UGD 0/0 100.0 100.0 MEG_7328 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:UGD NA
contig00006 56177 57820 YOGI 0/0 100.0 97.3 MEG_7842 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_ABC_efflux_pumps:YOGI NA
ID267
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00398 177 965 aadA5_1 0/0 100.0 100.0 AF137361 aadA5 Streptomycin
contig00435 1238 1771 ant(2’’)-Ia_1 0/0 100.0 100.0 X04555 ant(2’’)-Ia Gentamicin, Tobramycin
contig00333 3186 3988 aph(3’’)-Ib_2 0/0 99.9 100.0 AF024602 aph(3’’)-Ib Streptomycin
contig00435 372 1187 aph(3’)-Ia_7 0/0 100.0 100.0 X62115 aph(3’)-Ia
contig00333 2350 3186 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00080 9 1160 blaADC-25_1 0/0 100.0 99.9 EF016355 blaADC-25
contig00276 5631 6506 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00238 47 889 blaOXA-420_1 0/0 100.0 100.0 AB983359 blaOXA-420
contig00282 5814 6638 blaOXA-69_1 0/0 100.0 100.0 AY859527 blaOXA-69 Amoxicillin, Ampicillin
contig00398 1096 1569 dfrA17_1 0/0 100.0 100.0 FJ460238 dfrA17 Trimethoprim
contig00470 160 669 dfrA20_1 0/0 100.0 100.0 AJ605332 dfrA20 Trimethoprim
contig00416 266 1029 erm(B)_18 2/2 100.0 99.0 X66468 erm(B) Erythromycin, Lincomycin, Clindamycin, Quinupristin, Pristinamycin_IA, Virginiamycin_S
contig00007 8983 10215 mdf(A)_1 0/0 100.0 98.1 Y08743 mdf(A)
contig00469 69 999 mph(A)_2 2/10 100.0 98.6 U36578 mph(A) Erythromycin, Azithromycin, Spiramycin, Telithromycin
contig00238 5534 6418 mph(E)_1 0/0 100.0 100.0 DQ839391 mph(E) Erythromycin
contig00238 6474 7949 msr(E)_1 0/0 100.0 100.0 FR751518 msr(E)
contig00325 322 1188 sul1_5 0/0 100.0 99.9 EU780013 sul1 Sulfamethoxazole
contig00328 277 1092 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00398 177 965 aadA5 0/0 100.0 100.0 AF137361:63-852 aadA5 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids transposons and integrons in E. coli K. pneumoniae Kluyvera georgiana P. aeruginosa and E. cloacae aminoglycoside
contig00006 105054 106400 abeM 0/0 100.0 98.9 AB204810:186-1533 AbeM is an multidrug efflux pump found in Acinetobacter baumannii. acridine_dye, fluoroquinolone, triclosan
contig00099 22343 22672 abeS 0/0 100.0 100.0 CP001172.1:1249348-1249018 AbeS in an efflux pump of the SMR family of transporters found in Acinetobacter baumannii. aminocoumarin, macrolide
contig00088 9931 11220 Acinetobacter_baumannii_AbaF 0/0 100.0 97.9 CP000521.1:1558523-1557233 Expression of abaF in E. coli resulted in increased resistance to fosfomycin. fosfomycin
contig00134 14391 15695 Acinetobacter_baumannii_AbaQ 0/0 100.0 100.0 CP001182.2:2256889-2255584 AbaQ is an MFS transporter mainly involved in the extrusion of quinolone-type drugs in A. baumannii fluoroquinolone
contig00087 15521 16999 Acinetobacter_baumannii_AmvA 0/0 100.0 100.0 FJ911554.1:176-1655 AmvA has 14 alpha-helical transmembrane segments qualifying it as a member of the DHA2 transporter family of the major facilitator superfamily (MFS). When AmvA was expressed in E. coli the cells had at least four-fold decreased susceptibility to erythromycin acridine orange acriflavine deoxycholate and methyl viologen. AmvA from the AC0037 strain of A. baumannii was tested. acridine_dye, macrolide
contig00005 110504 113653 acrB 0/0 100.0 99.0 U00096.3:484403-481253 Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00048 12171 15284 acrD 0/0 100.0 98.9 AP009048.1:2586250-2589364 AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. aminoglycoside
contig00233 8468 9625 acrE 0/0 100.0 98.2 U00096:3413863-3415021 AcrE is a membrane fusion protein similar to AcrA. cephalosporin, cephamycin, fluoroquinolone, penam
contig00233 5352 8456 acrF 0/0 100.0 97.5 U00096:3415032-3418137 AcrF is a inner membrane transporter similar to AcrB. cephalosporin, cephamycin, fluoroquinolone, penam
contig00233 10024 10686 acrS 0/0 100.0 97.4 U00096:3413465-3412802 AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00080 9 1160 ADC-30 0/0 100.0 100.0 JF265068.1:954-2106 An ADC beta-lactamase and cephalosporinase from Acinetobacter baumannii cephalosporin
contig00138 12149 13339 adeA 0/0 100.0 97.7 AF370885.1:3438-4629 AdeA is the membrane fusion protein of the multidrug efflux complex AdeABC. glycylcycline, tetracycline
contig00138 9042 12149 adeB 0/0 100.0 97.8 AF370885.1:4628-7736 AdeB is the multidrug transporter of the adeABC efflux system. glycylcycline, tetracycline
contig00138 7568 8965 adeC 0/0 100.0 95.4 CP013924.1:2063742-2065140 AdeC is the outer membrane factor of the AdeABC multidrug efflux complex. It can be replaced by other outer membrane channels and is not essential for antibiotic resistance. glycylcycline, tetracycline
contig00099 13399 16578 adeF 0/0 100.0 100.0 CT025801.2:0-3180 AdeF is the membrane fusion protein of the multidrug efflux complex AdeFGH. fluoroquinolone, tetracycline
contig00099 16585 17805 adeG 0/0 100.0 100.0 CT025800.2:0-1221 AdeG is the inner membrane transporter of the AdeFGH multidrug efflux complex. fluoroquinolone, tetracycline
contig00099 11938 13389 adeH 0/0 100.0 100.0 CT025802.2:0-1452 AdeH is the outer membrane channel protein of the AdeFGH multidrug efflux complex. fluoroquinolone, tetracycline
contig00033 10169 11419 adeI 0/0 100.0 100.0 CP001182.2:3283426-3284677 AdeI is the membrane fusion protein of the AdeIJK multidrug efflux complex. carbapenem, cephalosporin, diaminopyrimidine, fluoroquinolone, lincosamide, macrolide, penem, phenicol, rifamycin, tetracycline
contig00033 11432 14608 adeJ 0/0 100.0 99.6 AY769962:2434-5611 AdeJ is a RND efflux protein that acts as the inner membrane transporter of the AdeIJK efflux complex. It has 57% identity with E. coli AcrB. carbapenem, cephalosporin, diaminopyrimidine, fluoroquinolone, lincosamide, macrolide, penem, phenicol, rifamycin, tetracycline
contig00033 14608 16062 adeK 0/0 100.0 98.7 AY769962:5610-7065 AdeK is the outer membrane factor protein in the adeIJK multidrug efflux complex. carbapenem, cephalosporin, diaminopyrimidine, fluoroquinolone, lincosamide, macrolide, penem, phenicol, rifamycin, tetracycline
contig00099 18021 19034 adeL 0/0 100.0 99.4 KR297239.1:1428-414 AdeL is a regulator of AdeFGH in Acinetobacter baumannii. AdeL mutations are associated with AdeFGH overexpression and multidrug resistance. fluoroquinolone, tetracycline
contig00171 4051 4704 adeN 0/0 100.0 98.0 KF147862:0-654 AdeN is a repressor of AdeIJK a RND-type efflux pump in Acinetobacter baumannii. Its inactivation increases expression of AdeJ. carbapenem, cephalosporin, diaminopyrimidine, fluoroquinolone, lincosamide, macrolide, penem, phenicol, rifamycin, tetracycline
contig00138 13485 14228 adeR 0/0 100.0 100.0 HM440348:0-744 AdeR is a positive regulator of AdeABC efflux system. AdeR inactivation leads to susceptibility to aminoglycoside antibiotics. glycylcycline, tetracycline
contig00138 14260 15345 adeS 0/0 100.0 99.7 HM440348:775-1861 AdeS is a sensor kinase in the AdeRS regulatory system of AdeABC. It is essential for AdeABC expression. glycylcycline, tetracycline
contig00435 1238 1771 ANT(2’’)-Ia 0/0 100.0 100.0 AF078527:3769-4303 Plasmid or integron-encoded nucleotidylylation of 2-deoxystreptamine aminoglycosides at the hydroxyl group at position 2’’ in P. aeruginosa K. pneumoniae Morganella morganii E. coli S. typhimurium C. freundii and A. baumannii aminoglycoside
contig00333 3186 3989 APH(3’’)-Ib 0/0 100.0 99.9 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00435 372 1187 APH(3’)-Ia 0/0 100.0 100.0 BX664015.1:103833-103017 APH(3’)-Ia is a transposon-encoded aminoglycoside phosphotransferase in E. coli and S. enterica. It is identical at the protein sequence to APH(3’)-Ic an aminoglycoside phosphotransferase encoded by plasmids transposons and genomic islands in K. pneumoniae A. baumannii S. marcescens Corynebacterium spp. Photobacterium spp. and Citrobacter spp. aminoglycoside
contig00333 2350 3186 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00008 77808 78627 bacA 0/0 99.8 96.7 U00096.3:3204131-3203309 The bacA gene product (BacA) recycles undecaprenyl pyrophosphate during cell wall biosynthesis which confers resistance to bacitracin. peptide
contig00071 10889 11610 baeR 0/0 99.9 96.7 AP009048.1:2166412-2167135 BaeR is a response regulator that promotes the expression of MdtABC and AcrD efflux complexes. aminocoumarin, aminoglycoside
contig00071 9489 10892 baeS 0/0 100.0 97.1 AP009048:2165012-2166416 BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. aminocoumarin, aminoglycoside
contig00004 63975 65348 cpxA 0/0 100.0 97.9 BA000007.3:4905062-4903688 CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. aminocoumarin, aminoglycoside
contig00066 12447 13079 CRP 0/0 100.0 99.0 AP009048.1:4154296-4153663 CRP is a global regulator that represses MdtEF multidrug efflux pump expression. fluoroquinolone, macrolide, penam
contig00276 5631 6506 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00398 1096 1569 dfrA17 0/0 100.0 100.0 DQ838665:0-474 dfrA17 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00470 160 669 dfrA20 0/0 100.0 100.0 AJ605332:1303-1813 dfrA20 is a plasmid-encoded dihydrofolate reductase found in Pasteurella multocida diaminopyrimidine
contig00046 45238 46410 emrA 0/0 100.0 97.8 AP009048:2810082-2811255 EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. fluoroquinolone
contig00046 46427 47965 emrB 0/0 100.0 98.4 U00096:2812615-2814154 emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. fluoroquinolone
contig00267 6988 8043 emrK 0/0 100.0 97.3 D78168:536-1592 emrK is a membrane fusion protein that is a homolog of EmrA. Together with the inner membrane transporter EmrY and the outer membrane channel TolC it mediates multidrug efflux. tetracycline
contig00046 44581 45111 emrR 0/0 100.0 99.4 U00096.3:2810769-2811300 EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. fluoroquinolone
contig00267 5450 6988 emrY 0/0 100.0 97.9 D78168:1591-3130 emrY is a multidrug transport that moves substrates across the inner membrane of the Gram-negative E. coli. It is a homolog of emrB. tetracycline
contig00040 7505 9148 eptA 0/0 100.0 98.5 AP009048:4340268-4338624 PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. peptide
contig00416 292 1037 ErmB 1/1 99.9 99.2 AF242872.1:2131-2878 ErmB confers the MLSb phenotype. Similar to ErmC expression of ErmB is inducible by erythromycin. The leader peptide causes attenuation of the mRNA and stabilizes the structure preventing further translation. When erythromycin is present it binds the leader peptide causing a change in conformation allowing for the expression of ErmB. lincosamide, macrolide, streptogramin
contig00005 113676 114869 Escherichia_coli_acrA 0/0 100.0 99.0 U00096.3:485619-484425 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00001 48586 49719 Escherichia_coli_ampC 0/0 100.0 97.3 U00096.3:4378944-4377810 A class C ampC beta-lactamase (cephalosporinase) enzyme described in Escherichia coli shown clinically to confer resistance to penicillin-like and cephalosporin-class antibiotics. cephalosporin, penam
contig00005 20726 21883 Escherichia_coli_ampH 0/0 100.0 96.7 AP012030.1:396711-395553 AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. cephalosporin, penam
contig00075 23736 24068 Escherichia_coli_emrE 0/0 100.0 98.8 Z11877.1:485-818 Member of the small MDR (multidrug resistance) family of transporters, in Escherichia coli this protein provides resistance against a number of positively charged compounds including ethidium bromide and erythromycin, proton-dependent secondary transporter which exchanges protons for compound translocation macrolide
contig00007 8983 10215 Escherichia_coli_mdfA 0/0 100.0 96.7 JQ394987:0-1233 Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. benzalkonium_chloride, rhodamine, tetracycline
contig00194 229 3822 evgS 0/0 100.0 96.9 U00096:2484373-2487967 EvgS is a sensor protein that phosphorylates the regulatory protein EvgA. evgS corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. fluoroquinolone, macrolide, penam, tetracycline
contig00036 47122 47850 gadW 0/0 100.0 95.9 CP015085.1:2552440-2551711 GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. fluoroquinolone, macrolide, penam
contig00036 45929 46753 gadX 0/0 100.0 96.8 AP009048.1:3974604-3975429 GadX is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. fluoroquinolone, macrolide, penam
contig00299 5050 5463 H-NS 0/0 100.0 99.5 BA000007.3:1738104-1737690 H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline
contig00021 59393 60068 kdpE 0/0 99.7 95.9 U00096.3:721733-721055 kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. aminoglycoside
contig00109 10823 11206 marA 0/0 100.0 99.5 AP009048.1:1621287-1621671 In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig00071 629 1876 mdtA 0/0 100.0 97.4 U00096:2154015-2155263 MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. aminocoumarin
contig00071 1876 4998 mdtB 0/0 100.0 96.7 U00096:2155262-2158385 MdtB is a transporter that forms a heteromultimer complex with MdtC to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. aminocoumarin
contig00071 4999 8076 mdtC 0/0 100.0 96.2 U00096:2158385-2161463 MdtC is a transporter that forms a heteromultimer complex with MdtB to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. In the absence of MdtB MdtC can form a homomultimer complex that results in a functioning efflux complex with a narrower drug specificity. mdtC corresponds to 3 loci in Pseudomonas aeruginosa PAO1 (gene name: muxC/muxB) and 3 loci in Pseudomonas aeruginosa LESB58. aminocoumarin
contig00036 51351 52508 mdtE 0/0 100.0 98.2 AP009048.1:3981183-3980025 MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. fluoroquinolone, macrolide, penam
contig00036 48213 51326 mdtF 0/0 100.0 98.3 U00096:3660413-3663527 MdtF is the multidrug inner membrane transporter for the MdtEF-TolC efflux complex. fluoroquinolone, macrolide, penam
contig00068 27297 28505 mdtH 0/0 100.0 98.2 U00096:1125326-1124117 Multidrug resistance protein MdtH fluoroquinolone
contig00013 83486 84697 mdtM 0/0 98.3 95.5 U00096.3:4568519-4567286 Multidrug resistance protein MdtM acridine_dye, fluoroquinolone, lincosamide, nucleoside, phenicol
contig00032 21677 22708 mdtN 0/0 100.0 97.7 AP009048.1:4307588-4306556 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. acridine_dye, nucleoside
contig00032 22708 24759 mdtO 0/0 100.0 97.0 AP009048.1:4306557-4304505 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00032 24756 26222 mdtP 0/0 100.0 97.0 AP009048.1:4304509-4303042 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00469 69 971 mphA 0/0 99.7 99.9 D16251.1:2531-1625 The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. macrolide
contig00170 8510 8984 mphB 0/0 99.6 95.6 AE005174.2:3397370-3397847 The mphB gene encodes for MPH(2’)-II. This enzymes phosphorylates 14-membered and 16-membered macrolides. It phosphorylates macrolides in GTP- dependent manner at 2’-OH hydroxyl of desosamine sugar of macrolides. macrolide
contig00238 5534 6418 mphE 0/0 100.0 100.0 DQ839391.1:13757-12872 mphE is a macrolide phosphotransferase and resistance gene identified on a plasmid pRSB105 macrolide
contig00090 12081 13829 msbA 0/0 100.0 98.7 U00096.3:966620-968369 MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. nitroimidazole
contig00238 6474 7949 msrE 0/0 100.0 100.0 EU294228.1:21241-22717 MsrE is an ABC-F subfamily protein expressed to Klebsiella pneumoniae that confers resistance to erythromycin and streptogramin B antibiotics. It is associated with plasmid DNA. It is also 100% identical to ABC-F type ribosomal protection protein Msr(E) which is in multiple species. lincosamide, macrolide, oxazolidinone, phenicol, pleuromutilin, streptogramin, tetracycline
contig00238 47 889 OXA-420 0/0 100.0 100.0 AB983359:2425-3268 From the Lahey list of beta-lactamases. Not yet released. cephalosporin, penam
contig00282 5814 6638 OXA-69 0/0 100.0 100.0 CU459141.1:2175316-2176141 OXA-69 is a beta-lactamase found in A. baumannii cephalosporin, penam
contig00058 4694 5662 pmrF 0/0 100.0 98.5 U00096:2367070-2368039 PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. peptide
contig00325 349 1188 sul1 0/0 100.0 100.0 JF969163:1053-1893 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
contig00328 277 1092 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00008 50257 51744 tolC 0/0 100.0 98.1 FJ768952:0-1488 TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan
contig00164 6813 7979 ugd 0/0 100.0 99.7 U00096:2099613-2098446 PmrE is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin peptide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00398 177 965 (AGly)aadA5 0/0 100.0 100.0 AF137361:64-852 (AGly)aadA5 NA
contig00435 1238 1771 (AGly)aadB 0/0 100.0 100.0 JQ690540:4275-4808 (AGly)aadB NA
contig00122 23736 24524 (AGly)ant(3’’)-IIa 0/0 100.0 98.9 NG_054648:101-889 (AGly)ant(3’’)-IIa NA
contig00435 372 1187 (AGly)aph(3’’)-Ia 0/0 100.0 100.0 FJ172370:38668-39483 (AGly)aph(3’’)-Ia NA
contig00333 3186 3989 (AGly)strA 0/0 100.0 100.0 AB366441:22458-23261 (AGly)strA NA
contig00333 2350 3186 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00001 48586 49719 (Bla)AmpC2_Ecoli 0/0 100.0 97.3 CP002970:332756-333889 (Bla)AmpC2_Ecoli NA
contig00005 20726 21883 (Bla)ampH_Ecoli 0/0 100.0 96.7 AP012030:395554-396711 (Bla)ampH_Ecoli NA
contig00303 1387 2406 (Bla)BlaA1 0/0 100.0 99.9 NC_010410:1803480-1804499 (Bla)BlaA1 NA
contig00255 258 1532 (Bla)BlaA2 0/0 100.0 100.0 NC_010410:2507740-2509014 (Bla)BlaA2 NA
contig00080 9 1160 (Bla)blaADC-30 0/0 100.0 100.0 JF265068:955-2106 (Bla)blaADC-30 NA
contig00276 5631 6506 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00238 47 889 (Bla)blaOXA-58 0/0 100.0 99.6 AY665723:3301-4143 (Bla)blaOXA-58 NA
contig00282 5814 6638 (Bla)blaOXA-69 0/0 100.0 100.0 AY750911:1-825 (Bla)blaOXA-69 NA
contig00094 30935 31612 (Bla)Mbl 0/0 97.4 100.0 NC_010410:c1997136-1996441 (Bla)Mbl NA
contig00133 17530 19431 (Bla)Penicillin_Binding_Protein_Ecoli 0/0 100.0 98.4 CP002291:664439-666340 (Bla)Penicillin_Binding_Protein_Ecoli NA
contig00120 12272 13234 (Bla)Zn-dependent_hydrolase 0/0 100.0 100.0 NC_010410:882015-882977 (Bla)Zn-dependent_hydrolase NA
contig00416 292 1029 (MLS)erm(B) 0/0 100.0 99.6 M11180:714-1451 (MLS)erm(B) NA
contig00469 69 971 (MLS)mph(A) 0/0 99.7 99.9 DQ445270:1626-2531 (MLS)mph(A) NA
contig00238 5534 6418 (MLS)mph(E) 0/0 100.0 99.9 JF769133:8777-9661 (MLS)mph(E) NA
contig00238 6474 7949 (MLS)msr(E) 0/0 100.0 100.0 JF769133:7246-8721 (MLS)msr(E) NA
contig00325 349 1188 (Sul)sul1 0/0 100.0 100.0 AF071413:6700-7539 (Sul)sul1 NA
contig00328 277 1092 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00398 1096 1569 (Tmt)dfrA17 0/0 100.0 100.0 AB126604:98-571 (Tmt)dfrA17 NA
contig00470 160 669 (Tmt)dfrA20 0/0 100.0 100.0 AJ605332:1304-1813 (Tmt)dfrA20 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00398 177 965 aadA5 0/0 100 100.0 NG_047357.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA5 STREPTOMYCIN
contig00435 1238 1771 ant(2’’)-Ia 0/0 100 100.0 NG_047387.1 aminoglycoside nucleotidyltransferase ANT(2’’)-Ia GENTAMICIN, KANAMYCIN, TOBRAMYCIN
contig00122 23736 24524 ant(3’’)-IIa 0/0 100 100.0 NG_054646.1 aminoglycoside nucleotidyltransferase ANT(3’’)-IIa SPECTINOMYCIN, STREPTOMYCIN
contig00333 3186 4013 aph(3’’)-Ib 0/0 100 99.9 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00435 372 1187 aph(3’)-Ia 0/0 100 100.0 NG_047431.1 aminoglycoside O-phosphotransferase APH(3’)-Ia KANAMYCIN
contig00333 2350 3186 aph(6)-Id 0/0 100 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00080 9 1160 blaADC-30 0/0 100 100.0 NG_048652.1 class C extended-spectrum beta-lactamase ADC-30 CEPHALOSPORIN
contig00276 5631 6506 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00001 48586 49719 blaEC-8 0/0 100 98.4 NG_049086.1 cephalosporin-hydrolyzing class C beta-lactamase EC-8 CEPHALOSPORIN
contig00238 47 889 blaOXA-420 0/0 100 100.0 NG_049708.1 OXA-58 family carbapenem-hydrolyzing class D beta-lactamase OXA-420 CARBAPENEM
contig00282 5814 6638 blaOXA-69 0/0 100 100.0 NG_049809.1 OXA-51 family carbapenem-hydrolyzing class D beta-lactamase OXA-69 CARBAPENEM
contig00398 1096 1569 dfrA17 0/0 100 99.8 NG_047710.1 trimethoprim-resistant dihydrofolate reductase DfrA17 TRIMETHOPRIM
contig00470 160 669 dfrA20 0/0 100 100.0 NG_047714.1 trimethoprim-resistant dihydrofolate reductase DfrA20 TRIMETHOPRIM
contig00416 292 1029 erm(B) 0/0 100 99.9 NG_047804.1 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(B) MACROLIDE
contig00469 69 999 mph(A) 2/10 100 98.6 NG_047986.1 Mph(A) family macrolide 2’-phosphotransferase MACROLIDE
contig00238 5534 6418 mph(E) 0/0 100 100.0 NG_064660.1 Mph(E) family macrolide 2’-phosphotransferase MACROLIDE
contig00238 6474 7949 msr(E) 0/0 100 100.0 NG_048007.1 ABC-F type ribosomal protection protein Msr(E) MACROLIDE
contig00325 349 1188 sul1 0/0 100 100.0 NG_048082.1 sulfonamide-resistant dihydropteroate synthase Sul1 SULFONAMIDE
contig00328 277 1092 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00088 9931 11220 ABAF 0/0 100.0 97.9 MEG_369 Drugs:Fosfomycin:Fosfomycin_MFS_efflux_pump:ABAF NA
contig00134 14391 15695 ABAQ 0/0 100.0 100.0 MEG_370 Drugs:Fosfomycin:Fosfomycin_MFS_efflux_pump:ABAQ NA
contig00006 105054 106400 ABEM 0/0 100.0 98.9 MEG_372 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:ABEM NA
contig00099 22343 22672 ABES 0/0 100.0 100.0 MEG_379 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:ABES NA
contig00005 113676 114869 ACRA 0/0 100.0 99.0 MEG_399 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA NA
contig00005 110504 113653 ACRB 0/0 100.0 99.0 MEG_401 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB NA
contig00048 12171 15284 ACRD 0/0 100.0 98.9 MEG_407 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ACRD NA
contig00233 8468 9625 ACRE 0/0 100.0 98.2 MEG_408 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRE NA
contig00233 5352 8456 ACRF 0/0 100.0 97.5 MEG_409 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRF NA
contig00233 10024 10686 ACRS 0/0 100.0 97.4 MEG_415 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ACRS NA
contig00080 9 1160 ADC 0/0 100.0 100.0 MEG_658 Drugs:betalactams:Class_C_betalactamases:ADC NA
contig00138 12149 13339 ADEA 0/0 100.0 97.7 MEG_677 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ADEA NA
contig00138 9042 12149 ADEB 0/0 100.0 97.8 MEG_678 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ADEB NA
contig00138 7568 8965 ADEC 0/0 100.0 95.4 MEG_679 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ADEC NA
contig00099 16585 17805 ADEF 0/0 100.0 100.0 MEG_683 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ADEF NA
contig00099 13399 16578 ADEG 0/0 100.0 100.0 MEG_684 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ADEG NA
contig00099 11938 13389 ADEH 0/0 100.0 100.0 MEG_685 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ADEH NA
contig00033 10169 11419 ADEI 0/0 100.0 100.0 MEG_686 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ADEI NA
contig00033 11432 14608 ADEJ 0/0 100.0 99.6 MEG_692 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ADEJ NA
contig00033 14608 16062 ADEK 0/0 100.0 99.0 MEG_696 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ADEK NA
contig00099 18021 19034 ADEL 0/0 100.0 99.5 MEG_699 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ADEL NA
contig00171 4051 4704 ADEN 0/0 100.0 100.0 MEG_701 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ADEN NA
contig00138 13485 14228 ADER 0/0 100.0 100.0 MEG_703 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ADER NA
contig00138 14260 15345 ADES 0/0 100.0 99.7 MEG_704 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ADES NA
contig00052 1620 2336 ADET2 0/0 100.0 98.9 MEG_706 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ADET2 NA
contig00005 20726 21883 AMPH 0/0 100.0 96.7 MEG_729 Drugs:betalactams:Penicillin_binding_protein:AMPH NA
contig00087 15521 16999 AMVA 0/0 100.0 100.0 MEG_733 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:AMVA NA
contig00122 23736 24524 ANT3-DPRIME 0/0 100.0 100.0 MEG_913 Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME NA
contig00398 177 965 ANT3-DPRIME 0/0 100.0 100.0 MEG_928 Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME NA
contig00333 3186 4013 APH3-DPRIME 0/0 100.0 99.9 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00435 372 1187 APH3-DPRIME 0/0 100.0 100.0 MEG_1044 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00333 2350 3186 APH6 0/0 100.0 100.0 MEG_1086 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00065 31194 33046 ASMA 0/0 100.0 97.9 MEG_1180 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA NA
contig00008 77808 78627 BACA 0/0 99.8 97.0 MEG_1189 Drugs:Bacitracin:Undecaprenyl_pyrophosphate_phosphatase:BACA NA
contig00071 10889 11610 BAER 0/0 99.9 96.7 MEG_1192 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAER NA
contig00071 9489 10892 BAES 0/0 100.0 97.1 MEG_1193 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAES NA
contig00030 36680 37870 BCR 0/0 100.0 95.0 MEG_1210 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:BCR NA
contig00255 258 1532 BLAA 0/0 100.0 100.0 MEG_1247 Drugs:betalactams:Class_A_betalactamases:BLAA NA
contig00303 1387 2406 BLAA 0/0 100.0 99.9 MEG_1246 Drugs:betalactams:Class_A_betalactamases:BLAA NA
contig00001 48586 49719 BLAEC 0/0 100.0 98.4 MEG_1278 Drugs:betalactams:Class_C_betalactamases:BLAEC NA
contig00004 63280 63978 CPXAR 0/0 100.0 99.4 MEG_2122 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00004 63975 65348 CPXAR 0/0 100.0 98.2 MEG_2121 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00066 12447 13079 CRP 0/0 100.0 99.0 MEG_2132 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CRP NA
contig00398 1096 1569 DFRA 0/0 100.0 100.0 MEG_2547 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00046 45238 46410 EMRA 0/0 100.0 97.8 MEG_2722 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRA NA
contig00046 46427 47965 EMRB 0/0 100.0 98.4 MEG_2725 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRB NA
contig00045 6400 7590 EMRD 0/0 100.0 98.0 MEG_2729 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRD NA
contig00267 6988 8151 EMRK 0/0 100.0 97.6 MEG_2732 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRK NA
contig00046 44581 45111 EMRR 0/0 100.0 99.4 MEG_2734 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EMRR NA
contig00267 5450 6988 EMRY 0/0 100.0 98.0 MEG_2736 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRY NA
contig00040 7505 9148 EPTA 0/0 100.0 98.5 MEG_2739 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:EPTA NA
contig00416 266 1029 ERMB 2/2 100.0 99.0 MEG_2801 Drugs:MLS:23S_rRNA_methyltransferases:ERMB NA
contig00194 229 3822 EVGS 0/0 100.0 97.5 MEG_2869 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EVGS NA
contig00036 47122 47850 GADW 0/0 100.0 97.5 MEG_3081 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADW NA
contig00036 45929 46753 GADX 0/0 100.0 96.8 MEG_3083 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADX NA
contig00299 5050 5463 HNS 0/0 100.0 99.5 MEG_3271 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_pumps:HNS NA
contig00021 59393 60068 KDPE 0/0 99.7 95.9 MEG_3448 Drugs:Aminoglycosides:Aminoglycoside_efflux_pumps:KDPE NA
contig00109 10817 11206 MARA 0/0 100.0 99.5 MEG_3662 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARA NA
contig00109 10368 10802 MARR 0/0 100.0 98.4 MEG_3663 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARR NA
contig00007 8983 10215 MDFA 0/0 100.0 98.2 MEG_3737 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDFA NA
contig00071 629 1876 MDTA 0/0 100.0 97.4 MEG_3746 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTA NA
contig00071 1876 4998 MDTB 0/0 100.0 96.7 MEG_3747 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTB NA
contig00071 4999 8076 MDTC 0/0 100.0 96.2 MEG_3749 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTC NA
contig00036 51351 52508 MDTE 0/0 100.0 98.2 MEG_3751 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTE NA
contig00036 48213 51326 MDTF 0/0 100.0 98.3 MEG_3752 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTF NA
contig00068 27297 28505 MDTH 0/0 100.0 98.2 MEG_3755 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTH NA
contig00042 23506 23835 MDTI 0/0 100.0 99.7 MEG_3756 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTI NA
contig00042 23822 24187 MDTJ 0/0 100.0 98.4 MEG_3757 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTJ NA
contig00022 33497 34870 MDTK 0/0 100.0 98.2 MEG_3759 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MDTK NA
contig00013 83486 84697 MDTM 0/0 98.3 95.5 MEG_3761 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTM NA
contig00032 21677 22708 MDTN 0/0 100.0 97.7 MEG_3763 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTN NA
contig00032 22708 24759 MDTO 0/0 100.0 97.0 MEG_3764 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTO NA
contig00032 24756 26222 MDTP 0/0 100.0 97.0 MEG_3765 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTP NA
contig00399 1593 2582 MEXT 0/0 100.0 98.8 MEG_3934 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MEXT NA
contig00469 69 999 MPHA 2/10 100.0 98.6 MEG_4030 Drugs:MLS:Macrolide_phosphotransferases:MPHA NA
contig00170 8510 8984 MPHB 0/0 99.6 95.6 MEG_4033 Drugs:MLS:Macrolide_phosphotransferases:MPHB NA
contig00238 5534 6418 MPHE 0/0 100.0 100.0 MEG_4044 Drugs:MLS:Macrolide_phosphotransferases:MPHE NA
contig00090 12081 13829 MSBA 0/0 100.0 98.7 MEG_4061 Drugs:Multi-drug_resistance:Multi-drug_ABC_efflux_pumps:MSBA NA
contig00238 6474 7949 MSRE 0/0 100.0 100.0 MEG_4075 Drugs:MLS:MLS_resistance_ABC_efflux_pumps:MSRE NA
contig00075 23736 24068 MVRC 0/0 100.0 98.8 MEG_4103 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MVRC NA
contig00238 41 916 OXA 0/0 96.2 99.5 MEG_5259 Drugs:betalactams:Class_D_betalactamases:OXA NA
contig00282 5732 6683 OXA 3/3 98.9 97.5 MEG_5236 Drugs:betalactams:Class_D_betalactamases:OXA NA
contig00133 17530 19431 PBP2 0/0 100.0 98.4 MEG_5400 Drugs:betalactams:Penicillin_binding_protein:PBP2 NA
contig00058 4694 5662 PMRF 0/0 100.0 98.5 MEG_5801 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:PMRF NA
contig00325 8 355 QACEDELTA1 0/0 100.0 100.0 MEG_5829 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:QACEDELTA1 NA
contig00017 26249 27118 ROBA 0/0 100.0 99.3 MEG_6082 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ROBA NA
contig00032 48337 48659 SOXS 0/0 99.7 97.5 MEG_6551 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_resistance_regulator:SOXS NA
contig00325 348 1315 SULI 0/0 100.0 100.0 MEG_6615 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI NA
contig00328 277 1092 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00422 788 1204 TETD 0/0 100.0 100.0 MEG_7070 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETD NA
contig00164 6813 7979 UGD 0/0 100.0 99.7 MEG_7328 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:UGD NA
ORTHO006E
Resfinder
## [1] "No antibiotic resistance genes from Resfinder database were found"
CARD
## [1] "No antibiotic resistance genes from CARD database were found"
ARG-ANNOT
## [1] "No antibiotic resistance genes from ARG-ANNOT database were found"
NCBI
## [1] "No antibiotic resistance genes from NCBI database were found"
MEGARES
## [1] "No antibiotic resistance genes from MEGARES database were found"
ORTHO008E
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00365 300 1160 aac(3)-IId_1 0/0 100 99.9 EU022314 aac(3)-IId Gentamicin, Tobramycin
contig00381 117 920 aph(3’’)-Ib_5 0/0 100 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00064 19609 20754 blaACT-15_1 0/0 100 100.0 JX440356 blaACT-15
contig00323 187 1062 blaCTX-M-15_1 0/0 100 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00262 5416 6276 blaTEM-1A_1 0/0 100 100.0 HM749966 blaTEM-1A Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00420 163 645 dfrA14_5 0/0 100 99.6 DQ388123 dfrA14 Trimethoprim
contig00166 5357 5782 fosA_7 0/0 100 97.2 AEXB01000013 fosA Fosfomycin
contig00030 32798 34030 mdf(A)_1 0/0 100 98.4 Y08743 mdf(A)
contig00292 495 1139 qnrB1_1 0/0 100 100.0 DQ351241 qnrB1 Ciprofloxacin
contig00176 1415 2071 qnrS1_1 0/0 100 100.0 AB187515 qnrS1 Ciprofloxacin
contig00381 981 1796 sul2_2 0/0 100 100.0 AY034138 sul2 Sulfamethoxazole
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00365 300 1160 AAC(3)-IId 0/0 100.0 99.9 EU022314.1:0-861 AAC(3)-IId is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00016 69106 72255 acrB 0/0 100.0 99.1 U00096.3:484403-481253 Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00005 106861 109974 acrD 0/0 100.0 98.8 AP009048.1:2586250-2589364 AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. aminoglycoside
contig00003 286283 287440 acrE 0/0 100.0 97.8 U00096:3413863-3415021 AcrE is a membrane fusion protein similar to AcrA. cephalosporin, cephamycin, fluoroquinolone, penam
contig00003 287452 290556 acrF 0/0 100.0 98.1 U00096:3415032-3418137 AcrF is a inner membrane transporter similar to AcrB. cephalosporin, cephamycin, fluoroquinolone, penam
contig00003 285222 285884 acrS 0/0 100.0 97.3 U00096:3413465-3412802 AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00064 19609 20754 ACT-15 0/0 100.0 100.0 JX440356:754-1900 ACT-15 is a beta-lactamase. From the Lahey list of ACT beta-lactamases. carbapenem, cephalosporin, cephamycin, penam
contig00381 117 920 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00003 82065 82884 bacA 0/0 99.8 98.0 U00096.3:3204131-3203309 The bacA gene product (BacA) recycles undecaprenyl pyrophosphate during cell wall biosynthesis which confers resistance to bacitracin. peptide
contig00024 10793 11514 baeR 0/0 99.9 97.4 AP009048.1:2166412-2167135 BaeR is a response regulator that promotes the expression of MdtABC and AcrD efflux complexes. aminocoumarin, aminoglycoside
contig00024 9393 10796 baeS 0/0 100.0 91.5 AP009048:2165012-2166416 BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. aminocoumarin, aminoglycoside
contig00010 73069 74442 cpxA 0/0 100.0 99.0 BA000007.3:4905062-4903688 CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. aminocoumarin, aminoglycoside
contig00004 15815 16447 CRP 0/0 100.0 99.2 AP009048.1:4154296-4153663 CRP is a global regulator that represses MdtEF multidrug efflux pump expression. fluoroquinolone, macrolide, penam
contig00323 187 1062 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00420 163 645 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00018 54335 55507 emrA 0/0 100.0 98.3 AP009048:2810082-2811255 EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. fluoroquinolone
contig00018 55524 57062 emrB 0/0 100.0 98.2 U00096:2812615-2814154 emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. fluoroquinolone
contig00005 11017 12072 emrK 0/0 100.0 99.7 D78168:536-1592 emrK is a membrane fusion protein that is a homolog of EmrA. Together with the inner membrane transporter EmrY and the outer membrane channel TolC it mediates multidrug efflux. tetracycline
contig00018 53678 54208 emrR 0/0 100.0 99.4 U00096.3:2810769-2811300 EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. fluoroquinolone
contig00005 9479 11017 emrY 0/0 100.0 98.8 D78168:1591-3130 emrY is a multidrug transport that moves substrates across the inner membrane of the Gram-negative E. coli. It is a homolog of emrB. tetracycline
contig00007 138679 140322 eptA 0/0 100.0 97.5 AP009048:4340268-4338624 PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. peptide
contig00016 67890 69083 Escherichia_coli_acrA 0/0 100.0 99.1 U00096.3:485619-484425 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00014 106966 108099 Escherichia_coli_ampC 0/0 100.0 98.2 U00096.3:4378944-4377810 A class C ampC beta-lactamase (cephalosporinase) enzyme described in Escherichia coli shown clinically to confer resistance to penicillin-like and cephalosporin-class antibiotics. cephalosporin, penam
contig00005 74380 75684 Escherichia_coli_ampC1_beta-lactamase 0/0 100.0 96.1 FN649414.1:2765050-2766355 An ampC-like beta-lactamase identified from Escherichia coli. cephalosporin, penam
contig00025 54890 56047 Escherichia_coli_ampH 0/0 100.0 98.5 AP012030.1:396711-395553 AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. cephalosporin, penam
contig00029 25315 25647 Escherichia_coli_emrE 0/0 100.0 99.4 Z11877.1:485-818 Member of the small MDR (multidrug resistance) family of transporters, in Escherichia coli this protein provides resistance against a number of positively charged compounds including ethidium bromide and erythromycin, proton-dependent secondary transporter which exchanges protons for compound translocation macrolide
contig00030 32798 34030 Escherichia_coli_mdfA 0/0 100.0 96.8 JQ394987:0-1233 Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. benzalkonium_chloride, rhodamine, tetracycline
contig00005 12596 13210 evgA 0/0 100.0 99.0 BA000007.3:3212025-3212640 EvgA when phosphorylated is a positive regulator for efflux protein complexes emrKY and mdtEF. While usually phosphorylated in a EvgS dependent manner it can be phosphorylated in the absence of EvgS when overexpressed. fluoroquinolone, macrolide, penam, tetracycline
contig00005 13215 16808 evgS 0/0 100.0 98.9 U00096:2484373-2487967 EvgS is a sensor protein that phosphorylates the regulatory protein EvgA. evgS corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. fluoroquinolone, macrolide, penam, tetracycline
contig00166 5357 5782 FosA2 0/0 100.0 92.2 EU487198:216-642 An enzyme that confers resistance to fosfomycin in Enterobacter cloacae by breaking the epoxide ring of the molecule. It depends on the cofactors Manganese (II) and Potassium and uses Glutathione (GSH) as the nucleophilic molecule. fosfomycin
contig00004 203746 204474 gadW 0/0 100.0 96.0 CP015085.1:2552440-2551711 GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. fluoroquinolone, macrolide, penam
contig00004 204843 205667 gadX 0/0 100.0 93.8 AP009048.1:3974604-3975429 GadX is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. fluoroquinolone, macrolide, penam
contig00109 1494 1907 H-NS 0/0 100.0 99.3 BA000007.3:1738104-1737690 H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline
contig00009 145308 145985 kdpE 0/0 100.0 96.8 U00096.3:721733-721055 kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. aminoglycoside
contig00006 208653 209036 marA 0/0 100.0 99.7 AP009048.1:1621287-1621671 In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan
contig00024 533 1780 mdtA 0/0 100.0 96.2 U00096:2154015-2155263 MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. aminocoumarin
contig00024 1780 4902 mdtB 0/0 100.0 96.0 U00096:2155262-2158385 MdtB is a transporter that forms a heteromultimer complex with MdtC to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. aminocoumarin
contig00024 4903 7980 mdtC 0/0 100.0 95.6 U00096:2158385-2161463 MdtC is a transporter that forms a heteromultimer complex with MdtB to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. In the absence of MdtB MdtC can form a homomultimer complex that results in a functioning efflux complex with a narrower drug specificity. mdtC corresponds to 3 loci in Pseudomonas aeruginosa PAO1 (gene name: muxC/muxB) and 3 loci in Pseudomonas aeruginosa LESB58. aminocoumarin
contig00004 199088 200245 mdtE 0/0 100.0 98.5 AP009048.1:3981183-3980025 MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. fluoroquinolone, macrolide, penam
contig00004 200270 203383 mdtF 0/0 100.0 98.0 U00096:3660413-3663527 MdtF is the multidrug inner membrane transporter for the MdtEF-TolC efflux complex. fluoroquinolone, macrolide, penam
contig00013 51081 52307 mdtG 0/0 100.0 98.3 CP000800.1:1192954-1191727 The MdtG protein also named YceE appears to be a member of the major facilitator superfamily of transporters and it has been reported when overexpressed to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon. fosfomycin
contig00013 41241 42449 mdtH 0/0 100.0 97.8 U00096:1125326-1124117 Multidrug resistance protein MdtH fluoroquinolone
contig00001 294271 295503 mdtM 0/0 100.0 95.6 U00096.3:4568519-4567286 Multidrug resistance protein MdtM acridine_dye, fluoroquinolone, lincosamide, nucleoside, phenicol
contig00007 108402 109433 mdtN 0/0 100.0 97.8 AP009048.1:4307588-4306556 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. acridine_dye, nucleoside
contig00007 106351 108402 mdtO 0/0 100.0 96.9 AP009048.1:4306557-4304505 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00007 104888 106354 mdtP 0/0 100.0 96.8 AP009048.1:4304509-4303042 Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride acridine_dye, nucleoside
contig00005 130679 131155 mphB 0/0 100.0 97.5 AE005174.2:3397370-3397847 The mphB gene encodes for MPH(2’)-II. This enzymes phosphorylates 14-membered and 16-membered macrolides. It phosphorylates macrolides in GTP- dependent manner at 2’-OH hydroxyl of desosamine sugar of macrolides. macrolide
contig00087 6476 8224 msbA 0/0 100.0 98.8 U00096.3:966620-968369 MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. nitroimidazole
contig00035 25964 26932 pmrF 0/0 100.0 98.0 U00096:2367070-2368039 PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. peptide
contig00292 459 1139 QnrB17 0/0 100.0 99.3 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00176 1415 2071 QnrS1 0/0 100.0 100.0 DQ485529.1:0-657 QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri fluoroquinolone
contig00381 981 1796 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00262 5416 6276 TEM-150 0/0 100.0 99.9 AM183304:208-1069 TEM-150 is a beta-lactamase found in Enterobacter spp. E. coli and Klebsiella pneumoniae. cephalosporin, monobactam, penam, penem
contig00003 60230 61717 tolC 0/0 100.0 98.1 FJ768952:0-1488 TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan
contig00021 52037 53203 ugd 0/0 100.0 96.4 U00096:2099613-2098446 PmrE is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin peptide
contig00022 55292 56935 yojI 0/0 100.0 97.5 U00096.3:2308615-2306971 YojI mediates resistance to the peptide antibiotic microcin J25 when it is expressed from a multicopy vector. YojI is capable of pumping out microcin molecules. The outer membrane protein TolC in addition to YojI is required for export of microcin J25 out of the cell. Microcin J25 is thus the first known substrate for YojI. peptide
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00365 300 1160 (AGly)aac3-IId 0/0 100 99.9 EU022314:1-861 (AGly)aac3-IId NA
contig00381 117 920 (AGly)strA 0/0 100 99.9 AB366441:22458-23261 (AGly)strA NA
contig00005 74380 75684 (Bla)AmpC1_Ecoli 0/0 100 96.1 FN649414:2765051-2766355 (Bla)AmpC1_Ecoli NA
contig00014 106966 108099 (Bla)AmpC2_Ecoli 0/0 100 98.2 CP002970:332756-333889 (Bla)AmpC2_Ecoli NA
contig00025 54890 56047 (Bla)ampH_Ecoli 0/0 100 98.5 AP012030:395554-396711 (Bla)ampH_Ecoli NA
contig00064 19609 20754 (Bla)blaACT-15 0/0 100 100.0 JX440356:755-1900 (Bla)blaACT-15 NA
contig00323 187 1062 (Bla)blaCTX-M-15 0/0 100 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00262 5416 6276 (Bla)blaTEM-150 0/0 100 99.9 AM183304:209-1069 (Bla)blaTEM-150 NA
contig00012 45588 47489 (Bla)Penicillin_Binding_Protein_Ecoli 0/0 100 98.7 CP002291:664439-666340 (Bla)Penicillin_Binding_Protein_Ecoli NA
contig00166 5357 5782 (Fcyn)FosA2 0/0 100 92.2 EU487198:217-642 (Fcyn)FosA2 NA
contig00176 1415 2071 (Flq)qnr-S1 0/0 100 100.0 AB187515:9737-10393 (Flq)qnr-S1 NA
contig00292 459 1139 (Flq)qnrB1 0/0 100 100.0 DQ351241:1-681 (Flq)qnrB1 NA
contig00381 981 1796 (Sul)sul2 0/0 100 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00420 163 636 (Tmt)dfrA14 0/0 100 100.0 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00365 300 1160 aac(3)-IId 0/0 100 100.0 NG_047251.1 aminoglycoside N-acetyltransferase AAC(3)-IId GENTAMICIN
contig00381 117 944 aph(3’’)-Ib 0/0 100 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00064 19609 20754 blaACT-15 0/0 100 100.0 NG_048602.1 cephalosporin-hydrolyzing class C beta-lactamase ACT-15 CEPHALOSPORIN
contig00323 187 1062 blaCTX-M-15 0/0 100 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00014 106966 108099 blaEC-19 0/0 100 99.8 NG_049084.1 class C extended-spectrum beta-lactamase EC-19 CEPHALOSPORIN
contig00262 5416 6276 blaTEM-150 0/0 100 99.9 NG_050194.1 class A beta-lactamase TEM-150 BETA-LACTAM
contig00420 163 636 dfrA14 0/0 100 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00166 5357 5782 fosA 0/0 100 97.0 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00292 495 1139 qnrB1 0/0 100 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00176 1415 2071 qnrS1 0/0 100 100.0 NG_050543.1 quinolone resistance pentapeptide repeat protein QnrS1 QUINOLONE
contig00381 981 1796 sul2 0/0 100 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00365 300 1160 AAC3 0/0 100.0 100.0 MEG_64 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 NA
contig00016 67890 69083 ACRA 0/0 100.0 99.1 MEG_399 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA NA
contig00016 69106 72255 ACRB 0/0 100.0 99.1 MEG_401 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB NA
contig00005 106861 109974 ACRD 0/0 100.0 98.8 MEG_407 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ACRD NA
contig00003 286283 287440 ACRE 0/0 100.0 97.8 MEG_408 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRE NA
contig00003 287452 290556 ACRF 0/0 100.0 98.1 MEG_409 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRF NA
contig00003 285222 285884 ACRS 0/0 100.0 97.3 MEG_415 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ACRS NA
contig00064 19219 19450 ACT 0/0 100.0 97.0 MEG_497 Drugs:betalactams:Class_C_betalactamases:ACT NA
contig00064 19610 20856 ACT 0/0 100.0 100.0 MEG_487 Drugs:betalactams:Class_C_betalactamases:ACT NA
contig00025 54890 56047 AMPH 0/0 100.0 98.5 MEG_729 Drugs:betalactams:Penicillin_binding_protein:AMPH NA
contig00381 117 944 APH3-DPRIME 0/0 100.0 100.0 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00021 11320 13173 ASMA 0/0 100.0 97.5 MEG_1180 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA NA
contig00003 82065 82884 BACA 0/0 99.8 98.3 MEG_1189 Drugs:Bacitracin:Undecaprenyl_pyrophosphate_phosphatase:BACA NA
contig00024 10793 11514 BAER 0/0 99.9 97.4 MEG_1192 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAER NA
contig00024 9393 10796 BAES 0/0 100.0 91.5 MEG_1193 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAES NA
contig00022 28833 30023 BCR 0/0 100.0 96.6 MEG_1210 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:BCR NA
contig00014 106966 108099 BLAEC 0/0 100.0 99.8 MEG_1277 Drugs:betalactams:Class_C_betalactamases:BLAEC NA
contig00010 72374 73072 CPXAR 0/0 100.0 98.6 MEG_2118 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00010 73069 74442 CPXAR 0/0 100.0 99.0 MEG_2119 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR NA
contig00004 15815 16447 CRP 0/0 100.0 99.2 MEG_2132 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CRP NA
contig00420 163 636 DFRA 0/0 100.0 99.8 MEG_2517 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00018 54335 55507 EMRA 0/0 100.0 98.3 MEG_2722 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRA NA
contig00018 55524 57062 EMRB 0/0 100.0 98.2 MEG_2725 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRB NA
contig00099 21787 22977 EMRD 0/0 100.0 98.2 MEG_2729 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRD NA
contig00005 11017 12180 EMRK 0/0 100.0 99.7 MEG_2732 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRK NA
contig00018 53678 54208 EMRR 0/0 100.0 99.4 MEG_2734 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EMRR NA
contig00005 9479 11017 EMRY 0/0 100.0 98.8 MEG_2736 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRY NA
contig00007 138679 140322 EPTA 0/0 100.0 97.5 MEG_2739 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:EPTA NA
contig00005 13215 16808 EVGS 0/0 100.0 98.9 MEG_2870 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EVGS NA
contig00166 5357 5936 FOSA 0/0 99.7 92.8 MEG_2990 Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA NA
contig00004 203746 204474 GADW 0/0 100.0 97.4 MEG_3081 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADW NA
contig00004 204843 205667 GADX 0/0 100.0 93.8 MEG_3083 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADX NA
contig00109 1494 1907 HNS 0/0 100.0 99.3 MEG_3271 Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_pumps:HNS NA
contig00009 145308 145985 KDPE 0/0 100.0 96.8 MEG_3448 Drugs:Aminoglycosides:Aminoglycoside_efflux_pumps:KDPE NA
contig00006 208653 209042 MARA 0/0 100.0 99.7 MEG_3662 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARA NA
contig00006 209057 209491 MARR 0/0 100.0 97.9 MEG_3663 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARR NA
contig00030 32798 34030 MDFA 0/0 100.0 98.5 MEG_3737 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDFA NA
contig00024 533 1780 MDTA 0/0 100.0 96.2 MEG_3746 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTA NA
contig00024 1780 4902 MDTB 0/0 100.0 96.0 MEG_3747 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTB NA
contig00024 4903 7980 MDTC 0/0 100.0 95.6 MEG_3749 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTC NA
contig00004 199088 200245 MDTE 0/0 100.0 98.5 MEG_3751 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTE NA
contig00004 200270 203383 MDTF 0/0 100.0 98.0 MEG_3752 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTF NA
contig00013 51081 52307 MDTG 0/0 100.0 98.4 MEG_3753 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTG NA
contig00013 41241 42449 MDTH 0/0 100.0 97.8 MEG_3755 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTH NA
contig00006 168680 169009 MDTI 0/0 100.0 99.4 MEG_3756 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTI NA
contig00006 168328 168693 MDTJ 0/0 100.0 97.8 MEG_3757 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTJ NA
contig00006 97182 98554 MDTK 0/0 99.9 97.8 MEG_3759 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MDTK NA
contig00001 294271 295503 MDTM 0/0 100.0 95.6 MEG_3761 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTM NA
contig00007 108402 109433 MDTN 0/0 100.0 97.8 MEG_3763 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTN NA
contig00007 106351 108402 MDTO 0/0 100.0 96.9 MEG_3764 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTO NA
contig00007 104888 106354 MDTP 0/0 100.0 96.8 MEG_3765 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTP NA
contig00005 130679 131155 MPHB 0/0 100.0 97.5 MEG_4033 Drugs:MLS:Macrolide_phosphotransferases:MPHB NA
contig00087 6476 8224 MSBA 0/0 100.0 98.8 MEG_4061 Drugs:Multi-drug_resistance:Multi-drug_ABC_efflux_pumps:MSBA NA
contig00029 25315 25647 MVRC 0/0 100.0 99.4 MEG_4103 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MVRC NA
contig00012 45588 47489 PBP2 0/0 100.0 98.7 MEG_5400 Drugs:betalactams:Penicillin_binding_protein:PBP2 NA
contig00005 74380 75684 PBP4B 0/0 100.0 96.1 MEG_5409 Drugs:betalactams:Penicillin_binding_protein:PBP4B NA
contig00035 25964 26932 PMRF 0/0 100.0 98.0 MEG_5801 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:PMRF NA
contig00292 459 1139 QNRB 0/0 100.0 99.3 MEG_5928 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRB NA
contig00176 1415 2071 QNRS 0/0 100.0 100.0 MEG_6020 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRS NA
contig00001 234685 235554 ROBA 0/0 100.0 98.3 MEG_6082 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ROBA NA
contig00007 84489 84811 SOXS 0/0 99.7 97.5 MEG_6551 Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_resistance_regulator:SOXS NA
contig00381 981 1796 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00262 5398 6643 TEM 0/0 98.3 99.5 MEG_6875 Drugs:betalactams:Class_A_betalactamases:TEM NA
contig00021 52037 53203 UGD 0/0 100.0 96.4 MEG_7328 Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:UGD NA
contig00022 55292 56935 YOGI 0/0 100.0 97.5 MEG_7842 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_ABC_efflux_pumps:YOGI NA
ORTHO014EII
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00092 1696 2556 aac(3)-IIa_1 0/0 100.0 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00095 1539 2138 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00105 126 1090 ant(3’’)-Ia_1 3/7 99.3 99.1 X02340 ant(3’’)-Ia Streptomycin
contig00059 8750 9553 aph(3’’)-Ib_5 0/0 100.0 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00059 7914 8750 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00010 116113 117258 blaACT-5_1 0/0 100.0 99.2 FJ237369 blaACT-5
contig00059 2636 3511 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00095 578 1408 blaOXA-1_1 0/0 100.0 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00059 6333 7193 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00098 916 1570 catA1_1 0/0 99.2 99.8 V00622 catA1 Chloramphenicol
contig00070 5401 5883 dfrA14_5 0/0 100.0 99.6 DQ388123 dfrA14 Trimethoprim
contig00039 17872 18297 fosA_1 0/0 100.0 97.2 M85195 fosA Fosfomycin
contig00075 4404 5048 qnrB1_1 0/0 100.0 100.0 DQ351241 qnrB1 Ciprofloxacin
contig00059 9614 10429 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00081 1429 2697 tet(A)_6 1/22 97.8 93.2 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00092 1696 2556 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00095 1539 2138 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00010 116113 117258 ACT-23 0/0 100.0 99.3 KF515536:0-1146 ACT-23 is a beta-lactamase found in Escherichia coli carbapenem, cephalosporin, cephamycin, penam
contig00105 126 1090 ANT(3’’)-IIa 3/7 99.3 99.1 X02340.1:222-1194 ANT(3’’)-IIa is a aminoglycoside nucleotidyltransferase identified in Acinetobacter spp. via horizontal gene transfer mechanisms. aminoglycoside
contig00059 8750 9553 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00059 7914 8750 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00098 916 1570 catI 0/0 99.2 99.8 V00622:243-903 catI is a chromosome and transposon-encoded variant of the cat gene found in Escherichia coli and Acinetobacter baumannii phenicol
contig00059 2636 3511 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00070 5401 5883 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00039 17872 18297 FosA2 0/0 100.0 92.2 EU487198:216-642 An enzyme that confers resistance to fosfomycin in Enterobacter cloacae by breaking the epoxide ring of the molecule. It depends on the cofactors Manganese (II) and Potassium and uses Glutathione (GSH) as the nucleophilic molecule. fosfomycin
contig00095 578 1408 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00075 4367 5048 QnrB17 1/1 100.0 99.1 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00059 9614 10429 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00059 6333 7193 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00081 1429 2697 tet(A) 1/22 97.8 93.2 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00092 1696 2556 (AGly)aac3-IIa 0/0 100.0 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00105 126 937 (AGly)aadA1-pm 0/0 97.7 99.9 JQ690540:7968-8798 (AGly)aadA1-pm NA
contig00059 8750 9553 (AGly)strA 0/0 100.0 99.9 AB366441:22458-23261 (AGly)strA NA
contig00059 7914 8750 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00010 116113 117258 (Bla)blaACT-5 0/0 100.0 99.2 FJ237369:1-1146 (Bla)blaACT-5 NA
contig00059 2636 3511 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00095 578 1408 (Bla)blaOXA-1 0/0 100.0 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00059 6333 7193 (Bla)blaTEM-105 0/0 100.0 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00039 17872 18297 (Fcyn)FosA2 0/0 100.0 92.2 EU487198:217-642 (Fcyn)FosA2 NA
contig00075 4367 5048 (Flq)qnrB1 1/1 100.0 99.8 DQ351241:1-681 (Flq)qnrB1 NA
contig00098 916 1570 (Phe)catA1 0/0 99.2 99.8 V00622:244-903 (Phe)catA1 NA
contig00059 9614 10429 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00081 1429 2725 (Tet)tetA 1/22 100.0 93.3 JX424423:94438-95712 (Tet)tetA NA
contig00081 757 1398 (Tet)tetR 1/9 98.6 93.1 HF545434:53576-54226 (Tet)tetR NA
contig00070 5401 5874 (Tmt)dfrA14 0/0 100.0 100.0 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00092 1696 2556 aac(3)-IIe 0/0 100.0 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00095 1539 2093 aac(6’)-Ib-D181Y 0/0 100.0 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00105 126 917 aadA1 0/0 100.0 100.0 NG_052536.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00059 8750 9577 aph(3’’)-Ib 0/0 100.0 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00059 7914 8750 aph(6)-Id 0/0 100.0 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00010 116113 117258 blaACT-23 0/0 100.0 99.3 NG_048610.1 cephalosporin-hydrolyzing class C beta-lactamase ACT-23 CEPHALOSPORIN
contig00059 2636 3511 blaCTX-M-15 0/0 100.0 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00095 578 1408 blaOXA-1 0/0 100.0 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00059 6333 7193 blaTEM-1 0/0 100.0 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00098 916 1570 catA1 0/0 99.2 99.8 NG_047582.1 type A-1 chloramphenicol O-acetyltransferase CHLORAMPHENICOL
contig00070 5401 5874 dfrA14 0/0 100.0 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00039 17872 18297 fosA 0/0 100.0 97.2 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00075 4404 5048 qnrB1 0/0 100.0 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00059 9614 10429 sul2 0/0 100.0 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00081 1526 2725 tet(A) 0/0 100.0 100.0 NG_048157.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00092 1696 2556 AAC3 0/0 100.0 99.8 MEG_44 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 NA
contig00010 116011 117258 ACT 0/0 100.0 99.4 MEG_489 Drugs:betalactams:Class_C_betalactamases:ACT NA
contig00010 117416 117647 ACT 0/0 100.0 95.3 MEG_497 Drugs:betalactams:Class_C_betalactamases:ACT NA
contig00105 126 1090 ANT3-DPRIME 3/7 99.3 99.1 MEG_949 Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME NA
contig00059 8750 9577 APH3-DPRIME 0/0 100.0 100.0 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00059 7914 8750 APH6 0/0 100.0 100.0 MEG_1086 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00098 905 1570 CATA 0/0 99.2 100.0 MEG_1593 Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA NA
contig00070 5401 5874 DFRA 0/0 100.0 99.8 MEG_2517 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00039 17872 18452 FOSA 1/1 99.8 92.6 MEG_2990 Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA NA
contig00095 578 1408 OXA 0/0 100.0 100.0 MEG_4980 Drugs:betalactams:Class_D_betalactamases:OXA NA
contig00075 4367 5048 QNRB 1/1 100.0 99.1 MEG_5928 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRB NA
contig00059 9614 10429 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00059 5966 7211 TEM 0/0 98.3 99.4 MEG_6875 Drugs:betalactams:Class_A_betalactamases:TEM NA
contig00081 1526 2725 TETA 0/0 100.0 100.0 MEG_7021 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA NA
ORTHO025EII
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00434 1130 2569 aac(6’)-aph(2’’)_1 0/0 100 100.0 M13771 aac(6’)-aph(2’’) Amikacin, Gentamicin, Tobramycin
contig00010 27219 28106 blaZ_133 0/0 100 99.3 AIDT01000014 blaZ Amoxicillin, Ampicillin, Penicillin, Piperacillin
contig00029 1548 2045 dfrG_1 0/0 100 100.0 AB205645 dfrG Trimethoprim
contig00470 1331 2065 erm(C)_13 0/0 100 100.0 M13761 erm(C) Erythromycin, Lincomycin, Clindamycin, Quinupristin, Pristinamycin_IA, Virginiamycin_S
contig00147 2834 4840 mecA_8 0/0 100 100.0 NC_007168 mecA Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Cefixime, Cefotaxime, Cefoxitin, Ceftazidime, Ertapenem, Imipenem, Meropenem, Piperacillin, Piperacillin+Tazobactam
contig00274 138 1517 tet(K)_1 0/0 100 99.6 U38656 tet(K) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00434 1130 2569 AAC(6’)-Ie-APH(2’’)-Ia 0/0 100 100.0 GU565967.1:26419-24979 AAC(6’)-Ie-APH(2’’)-Ia is an aminoglycoside acetyltransferase encoded by plasmids and transposons in S. aureus E. faecalis E. faecium and Staphylococcus warneri aminoglycoside
contig00048 11640 12299 arlR 0/0 100 100.0 CP023390.1:1462248-1461588 ArlR is a response regulator that binds to the norA promoter to activate expression. ArlR must first be phosphorylated by ArlS. acridine_dye, fluoroquinolone
contig00700 634 1293 arlR 0/0 100 97.9 CP023390.1:1462248-1461588 ArlR is a response regulator that binds to the norA promoter to activate expression. ArlR must first be phosphorylated by ArlS. acridine_dye, fluoroquinolone
contig00048 12296 13651 arlS 0/0 100 100.0 CP000253.1:1361636-1360280 ArlS is a protein histidine kinase that phosphorylates ArlR a promoter for norA expression. acridine_dye, fluoroquinolone
contig00492 1044 1529 dfrC 0/0 100 99.0 AE015929.1:1129419-1128933 dfrC is a chromosome-encoded dihydrofolate reductase found in Staphylococcus aureus diaminopyrimidine
contig00029 1548 2045 dfrG 0/0 100 100.0 AB205645:1012-1510 dfrG is a plasmid-encoded dihydrofolate reductase found in Staphylococcus aureus diaminopyrimidine
contig00470 1331 2065 ErmC 0/0 100 99.9 M12730:779-1514 ErmC is a methyltransferase that catalyzes the methylation of A2058 of the 23S ribosomal RNA in two steps. Expression of ErmC is inducible by erythromycin. The leader peptide causes attenuation of the mRNA and stabilizes the structure preventing further translation. When erythromycin is present it binds the leader peptide causing a change in conformation allowing for the expression of ErmC. lincosamide, macrolide, streptogramin
contig00147 2834 4840 mecA 0/0 100 99.8 KC243783:0-2007 A foreign PBP2a acquired by lateral gene transfer that able to perform peptidoglycan synthesis in the presence of beta-lactams. penam
contig00011 26010 27365 mepA 0/0 100 100.0 AY661734.1:839-2195 MepA is an efflux protein regulated by MepR and part of the MepRAB cluster. Its presence in Staphylococcus aureus led to multidrug resistance while it has also been shown to decrease tigecycline susceptibility. glycylcycline, tetracycline
contig00184 4254 5609 mepA 0/0 100 97.6 AY661734.1:839-2195 MepA is an efflux protein regulated by MepR and part of the MepRAB cluster. Its presence in Staphylococcus aureus led to multidrug resistance while it has also been shown to decrease tigecycline susceptibility. glycylcycline, tetracycline
contig00011 25484 25903 mepR 0/0 100 99.3 BA000017.4:379931-380351 MepR is an upstream repressor of MepA in Staphylococcus aureus. It is part of the mepRAB operon. glycylcycline, tetracycline
contig00184 3728 4147 mepR 0/0 100 99.3 BA000017.4:379931-380351 MepR is an upstream repressor of MepA in Staphylococcus aureus. It is part of the mepRAB operon. glycylcycline, tetracycline
contig00199 155 3229 mupA 2/2 100 99.8 X75439:476-3551 An alternative isoleucyl-tRNA synthetase conferring resistance to mupirocin. mupirocin
contig00010 27219 28064 PC1_beta-lactamase_(blaZ) 0/0 100 96.9 CP000732.1:10528-9682 The blaZ beta-lactamase is found in Bacillus subtilis and Staphylococcus aureus. penam
contig00096 8842 9261 Staphylococcus_aureus_FosB 0/0 100 99.3 AHLO01000073.1:63138-63558 The Bacillus subtilis fosB gene encodes a fosfomycin resistance protein fosfomycin
contig00186 3062 4228 Staphylococcus_aureus_norA 0/0 100 99.9 D90119.1:477-1644 NorA gene cloned from Staphylococcus aureus conferred relatively high resistance to hydrophilic quinolones such as norfloxacin enoxacin ofloxacin and ciprofloxacin in S. aureus and Escherichia coli. Had low or no resistance at all to hydrophobic ones such as nalidixic acid oxolinic acid and sparfloxacin in S. aureus and Escherichia coli. fluoroquinolone
contig00052 11470 12912 Staphylococcys_aureus_LmrS 0/0 100 100.0 CP000046.1:2236817-2235374 MFS transporters are secondary active transporters with single-polypeptide chains containing 400-600 amino acids that transport small solutes across the membrane by using electrochemical gradients. LmrS has 14 transmembrane helices and when expressed in E. coli is capable of extruding a variety of antibiotics inclinding linezolid trimethoprim florfenicol chlorampheniocol erythromycin streptomycin kanamycin and fusidic acid aminoglycoside, diaminopyrimidine, macrolide, oxazolidinone, phenicol
contig00310 1552 2994 Staphylococcys_aureus_LmrS 0/0 100 95.6 CP000046.1:2236817-2235374 MFS transporters are secondary active transporters with single-polypeptide chains containing 400-600 amino acids that transport small solutes across the membrane by using electrochemical gradients. LmrS has 14 transmembrane helices and when expressed in E. coli is capable of extruding a variety of antibiotics inclinding linezolid trimethoprim florfenicol chlorampheniocol erythromycin streptomycin kanamycin and fusidic acid aminoglycoside, diaminopyrimidine, macrolide, oxazolidinone, phenicol
contig00007 25352 26704 tet(38) 0/0 100 99.8 AY825285:0-1353 Tet38 is a tetracycline efflux pump found in the Gram-positive Staphylococcus aureus. It is regulated by mgrA which also regulates NorB. tetracycline
contig00629 269 1621 tet(38) 0/0 100 97.6 AY825285:0-1353 Tet38 is a tetracycline efflux pump found in the Gram-positive Staphylococcus aureus. It is regulated by mgrA which also regulates NorB. tetracycline
contig00274 138 1517 tet(K) 0/0 100 99.6 S67449.1:0-1380 TetK is a tetracycline efflux protein found in both Gram-negative (Haemophilus and Gallibacterium) and Gram-positive (many species including mycobacteria) bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00434 1130 2569 (AGly)aac6-Aph2 0/0 100 100.0 M13771:304-1743 (AGly)aac6-Aph2 NA
contig00026 19507 20307 (AGly)apH-Stph 0/0 100 100.0 HE579073:1778413-1779213 (AGly)apH-Stph NA
contig00275 1321 2121 (AGly)apH-Stph 0/0 100 98.6 HE579073:1778413-1779213 (AGly)apH-Stph NA
contig00010 29918 30298 (Bla)blaI 0/0 100 95.5 NG_047499:101-481 (Bla)blaI NA
contig00010 28171 29928 (Bla)blaR1_Bacilli 0/0 100 93.0 NG_047539:1-1758 (Bla)blaR1_Bacilli NA
contig00010 27219 28064 (Bla)blaZ 0/0 100 94.8 AB245469:2235-3080 (Bla)blaZ NA
contig00147 2834 4840 (Bla)mecA 0/0 100 99.9 AB221124:91-2097 (Bla)mecA NA
contig00096 8842 9261 (Fcyn)FosB 0/0 100 99.3 AHLO01000073:63139-63558 (Fcyn)FosB NA
contig00186 3062 4228 (Flq)norA 0/0 100 99.9 D90119:478-1644 (Flq)norA NA
contig00470 1331 2065 (MLS)erm(C) 0/0 100 99.6 M19652:988-1722 (MLS)erm(C) NA
contig00007 25352 26704 (Tet)tet(38) 0/0 100 99.8 AY825285:1-1353 (Tet)tet(38) NA
contig00629 269 1621 (Tet)tet(38) 0/0 100 97.6 AY825285:1-1353 (Tet)tet(38) NA
contig00274 138 1517 (Tet)tetK 0/0 100 99.6 M16217:305-1684 (Tet)tetK NA
contig00492 1044 1529 (Tmt)dfrC 0/0 100 99.0 Z48233:337-822 (Tmt)dfrC NA
contig00029 1548 2045 (Tmt)dfrG 0/0 100 100.0 AB205645:1013-1510 (Tmt)dfrG NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00010 29918 30298 blaI_of_Z 0/0 100 95.5 NG_047499.1 penicillinase repressor BlaI BETA-LACTAM
contig00010 28171 29928 blaR1 0/0 100 93.0 NG_047539.1 beta-lactam sensor/signal transducer BlaR1 BETA-LACTAM
contig00010 27219 28064 blaZ 0/0 100 96.9 NG_055999.1 penicillin-hydrolyzing class A beta-lactamase BlaZ BETA-LACTAM
contig00492 1044 1529 dfrC 0/0 100 99.0 NG_047752.1 trimethoprim-resistant dihydrofolate reductase DfrC TRIMETHOPRIM
contig00029 1548 2045 dfrG 0/0 100 100.0 NG_047756.1 trimethoprim-resistant dihydrofolate reductase DfrG TRIMETHOPRIM
contig00470 1331 2065 erm(C) 0/0 100 100.0 NG_047806.1 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(C) MACROLIDE
contig00096 8842 9261 fosB-Saur 0/0 100 99.3 NG_065844.1 FosB1/FosB3 family fosfomycin resistance bacillithiol transferase FOSFOMYCIN
contig00147 2834 4840 mecA 0/0 100 100.0 NG_047939.1 PBP2a family beta-lactam-resistant peptidoglycan transpeptidase MecA METHICILLIN
contig00199 155 3229 mupA 0/0 100 99.9 NG_048008.1 mupirocin-resistant isoleucine–tRNA ligase MupA MUPIROCIN
contig00007 25352 26704 tet(38) 0/0 100 100.0 NG_048134.1 tetracycline efflux MFS transporter Tet(38) TETRACYCLINE
contig00629 269 1621 tet(38) 0/0 100 98.4 NG_048136.1 tetracycline efflux MFS transporter Tet(38) TETRACYCLINE
contig00274 138 1517 tet(K) 0/0 100 99.6 NG_048200.1 tetracycline efflux MFS transporter Tet(K) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00361 1978 2421 AAC3 0/0 100.0 98.9 MEG_47 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 NA
contig00434 1128 2572 AAC6-PRIME 0/0 100.0 100.0 MEG_364 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC6-PRIME NA
contig00026 19507 20307 APH3-PRIME 0/0 100.0 100.0 MEG_1060 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-PRIME NA
contig00275 1321 2121 APH3-PRIME 0/0 100.0 98.6 MEG_1060 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-PRIME NA
contig00048 11640 12299 ARLR 0/0 100.0 100.0 MEG_1117 Drugs:Multi-drug_resistance:MDR_regulator:ARLR NA
contig00700 634 1293 ARLR 0/0 100.0 98.2 MEG_1114 Drugs:Multi-drug_resistance:MDR_regulator:ARLR NA
contig00048 12296 13651 ARLS 0/0 100.0 100.0 MEG_1118 Drugs:Multi-drug_resistance:MDR_regulator:ARLS NA
contig00010 29918 30298 BLAI 0/0 100.0 95.5 MEG_1287 Drugs:betalactams:Penicillin_binding_protein_regulator:BLAI NA
contig00010 28171 29928 BLAR 0/0 100.0 93.0 MEG_1302 Drugs:betalactams:Penicillin_binding_protein_regulator:BLAR NA
contig00010 27219 28106 BLAZ 0/0 100.0 99.3 MEG_1407 Drugs:betalactams:Class_A_betalactamases:BLAZ NA
contig00029 1548 2045 DFRG 0/0 100.0 100.0 MEG_2579 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRG NA
contig00470 1331 2065 ERMC 0/0 100.0 100.0 MEG_2822 Drugs:MLS:23S_rRNA_methyltransferases:ERMC NA
contig00096 8842 9261 FOSB 0/0 100.0 99.3 MEG_3009 Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSB NA
contig00052 11470 12912 LMRS 0/0 100.0 100.0 MEG_3599 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:LMRS NA
contig00310 1552 2994 LMRS 0/0 100.0 95.6 MEG_3599 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:LMRS NA
contig00147 2834 4843 MECA 0/0 100.0 100.0 MEG_3783 Drugs:betalactams:Penicillin_binding_protein:MECA NA
contig00011 25995 27365 MEPA 0/0 100.0 100.0 MEG_3834 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MEPA NA
contig00184 4239 5609 MEPA 0/0 100.0 97.5 MEG_3834 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MEPA NA
contig00011 27469 27909 MEPB 0/0 100.0 100.0 MEG_3835 Drugs:Multi-drug_resistance:Multi-drug_MATE_efflux_pump:MEPB NA
contig00011 25484 25903 MEPR 0/0 100.0 99.3 MEG_3836 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_regulator:MEPR NA
contig00184 3728 4147 MEPR 0/0 100.0 99.3 MEG_3836 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_regulator:MEPR NA
contig00199 155 3229 MUPA 0/0 100.0 99.9 MEG_4089 Drugs:Mupirocin:Mupirocin-resistant_isoleucyl-tRNA_synthetase:MUPA NA
contig00186 3062 4228 NORA 0/0 100.0 99.9 MEG_4207 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:NORA NA
contig00008 2671 4062 NORB 0/0 100.0 99.3 MEG_4210 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:NORB NA
contig00338 536 859 QACC 0/0 100.0 99.7 MEG_5826 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:QACC NA
contig00024 12726 13203 RLMH 0/0 99.6 99.6 MEG_6058 Drugs:MLS:23S_rRNA_methyltransferases:RLMH NA
contig00007 25352 26704 TET38 0/0 100.0 100.0 MEG_6982 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TET38 NA
contig00629 269 1621 TET38 0/0 100.0 98.4 MEG_6985 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TET38 NA
contig00274 138 1517 TETK 0/0 100.0 99.6 MEG_7090 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETK NA
ORTHO025E
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00131 1695 2555 aac(3)-IIa_1 0/0 100.0 99.8 X51534 aac(3)-IIa Gentamicin, Tobramycin
contig00104 1309 2169 aac(3)-IId_1 0/0 100.0 99.9 EU022314 aac(3)-IId Gentamicin, Tobramycin
contig00136 1539 2138 aac(6’)-Ib-cr_1 0/0 100.0 100.0 DQ303918 aac(6’)-Ib-cr Ciprofloxacin
contig00156 126 1090 ant(3’’)-Ia_1 3/7 99.3 99.1 X02340 ant(3’’)-Ia Streptomycin
contig00118 1406 2209 aph(3’’)-Ib_5 0/0 100.0 100.0 AF321551 aph(3’’)-Ib Streptomycin
contig00118 570 1406 aph(6)-Id_1 0/0 100.0 100.0 M28829 aph(6)-Id Streptomycin
contig00123 1704 2579 blaCTX-M-15_1 0/0 100.0 100.0 AY044436 blaCTX-M-15 Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin
contig00136 578 1408 blaOXA-1_1 0/0 100.0 100.0 HQ170510 blaOXA-1 Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam
contig00079 4012 4872 blaTEM-1B_1 0/0 100.0 100.0 AY458016 blaTEM-1B Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin
contig00158 350 1004 catA1_1 0/0 99.2 99.8 V00622 catA1 Chloramphenicol
contig00114 3115 3597 dfrA14_5 0/0 100.0 99.6 DQ388123 dfrA14 Trimethoprim
contig00023 5385 5810 fosA_7 0/0 100.0 96.2 AEXB01000013 fosA Fosfomycin
contig00151 68 989 mph(A)_2 1/1 100.0 99.7 U36578 mph(A) Erythromycin, Azithromycin, Spiramycin, Telithromycin
contig00093 4404 5048 qnrB1_1 0/0 100.0 100.0 DQ351241 qnrB1 Ciprofloxacin
contig00003 5111 5755 qnrE1_1 0/0 100.0 99.1 KY073238 qnrE1 Ciprofloxacin
contig00118 2270 3085 sul2_2 0/0 100.0 100.0 AY034138 sul2 Sulfamethoxazole
contig00115 1429 2697 tet(A)_6 1/22 97.8 93.2 AF534183 tet(A) Doxycycline, Tetracycline
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00104 1309 2169 AAC(3)-IId 0/0 100.0 99.9 EU022314.1:0-861 AAC(3)-IId is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00131 1695 2555 AAC(3)-IIe 0/0 100.0 99.5 EU022315.1:0-861 AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli aminoglycoside
contig00136 1539 2138 AAC(6’)-Ib-cr 0/0 100.0 100.0 DQ303918:0-600 AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously aminoglycoside, fluoroquinolone
contig00156 126 1090 ANT(3’’)-IIa 3/7 99.3 99.1 X02340.1:222-1194 ANT(3’’)-IIa is a aminoglycoside nucleotidyltransferase identified in Acinetobacter spp. via horizontal gene transfer mechanisms. aminoglycoside
contig00118 1406 2209 APH(3’’)-Ib 0/0 100.0 99.8 AF313472:15593-16397 APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. aminoglycoside
contig00118 570 1406 APH(6)-Id 0/0 100.0 99.9 AF024602:3155-3992 APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum aminoglycoside
contig00158 350 1004 catI 0/0 99.2 99.8 V00622:243-903 catI is a chromosome and transposon-encoded variant of the cat gene found in Escherichia coli and Acinetobacter baumannii phenicol
contig00123 1704 2579 CTX-M-15 0/0 100.0 100.0 AY044436:1435-2311 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
contig00114 3115 3597 dfrA14 0/0 100.0 99.8 EU780012:2162-2645 dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli diaminopyrimidine
contig00022 76314 77507 Enterobacter_cloacae_acrA 0/0 100.0 91.9 DQ679966:299-1493 AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. cloacae. cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan
contig00023 5385 5810 FosA2 0/0 100.0 92.5 EU487198:216-642 An enzyme that confers resistance to fosfomycin in Enterobacter cloacae by breaking the epoxide ring of the molecule. It depends on the cofactors Manganese (II) and Potassium and uses Glutathione (GSH) as the nucleophilic molecule. fosfomycin
contig00151 68 973 mphA 0/0 100.0 100.0 D16251.1:2531-1625 The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. macrolide
contig00136 578 1408 OXA-1 0/0 100.0 100.0 JN420336.1:2230-1399 OXA-1 is a beta-lactamase found in E. coli cephalosporin, penam
contig00093 4367 5048 QnrB17 1/1 100.0 99.1 AM919398:0-681 QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii fluoroquinolone
contig00003 5111 5755 qnrE1 0/0 100.0 99.1 KY073238.1:1678-2323 qnrE1 is a member of the qnrE family of plasmid-borne (fluoro)quinolone-resistance genes with chromosomal origins from Enterobacter spp. fluoroquinolone
contig00118 2270 3085 sul2 0/0 100.0 100.0 AY055428.1:21084-20268 Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. sulfonamide
contig00079 4012 4872 TEM-1 0/0 100.0 99.9 AL513383:161910-162771 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. cephalosporin, monobactam, penam, penem
contig00115 1429 2697 tet(A) 1/22 97.8 93.2 AF534183.1:2970-4245 TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. tetracycline
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00131 1695 2555 (AGly)aac3-IIa 0/0 100.0 99.8 X51534:91-951 (AGly)aac3-IIa NA
contig00104 1309 2169 (AGly)aac3-IId 0/0 100.0 99.9 EU022314:1-861 (AGly)aac3-IId NA
contig00156 126 937 (AGly)aadA1-pm 0/0 97.7 99.9 JQ690540:7968-8798 (AGly)aadA1-pm NA
contig00118 1406 2209 (AGly)strA 0/0 100.0 99.9 AB366441:22458-23261 (AGly)strA NA
contig00118 570 1406 (AGly)strB 0/0 100.0 100.0 FJ474091:264-1100 (AGly)strB NA
contig00123 1704 2579 (Bla)blaCTX-M-15 0/0 100.0 100.0 JQ686199:261-1136 (Bla)blaCTX-M-15 NA
contig00136 578 1408 (Bla)blaOXA-1 0/0 100.0 100.0 JQ682867:1-831 (Bla)blaOXA-1 NA
contig00079 4012 4872 (Bla)blaTEM-105 0/0 100.0 99.9 AF516720:215-1075 (Bla)blaTEM-105 NA
contig00023 5385 5810 (Fcyn)FosA2 0/0 100.0 92.5 EU487198:217-642 (Fcyn)FosA2 NA
contig00093 4367 5048 (Flq)qnrB1 1/1 100.0 99.8 DQ351241:1-681 (Flq)qnrB1 NA
contig00151 68 973 (MLS)mph(A) 0/0 100.0 100.0 DQ445270:1626-2531 (MLS)mph(A) NA
contig00158 350 1004 (Phe)catA1 0/0 99.2 99.8 V00622:244-903 (Phe)catA1 NA
contig00118 2270 3085 (Sul)sul2 0/0 100.0 100.0 EU360945:1617-2432 (Sul)sul2 NA
contig00115 1429 2725 (Tet)tetA 1/22 100.0 93.3 JX424423:94438-95712 (Tet)tetA NA
contig00115 757 1398 (Tet)tetR 1/9 98.6 93.1 HF545434:53576-54226 (Tet)tetR NA
contig00114 3115 3588 (Tmt)dfrA14 0/0 100.0 100.0 GU726917:72-545 (Tmt)dfrA14 NA
NCBI
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00104 1309 2169 aac(3)-IId 0/0 100.0 100.0 NG_047251.1 aminoglycoside N-acetyltransferase AAC(3)-IId GENTAMICIN
contig00131 1695 2555 aac(3)-IIe 0/0 100.0 99.8 NG_047244.1 aminoglycoside N-acetyltransferase AAC(3)-IIe GENTAMICIN
contig00136 1539 2093 aac(6’)-Ib-D181Y 0/0 100.0 99.8 NG_067946.1 AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase AMIKACIN, KANAMYCIN, TOBRAMYCIN
contig00156 126 917 aadA1 0/0 100.0 100.0 NG_052536.1 ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA1 STREPTOMYCIN
contig00118 1406 2233 aph(3’’)-Ib 0/0 100.0 100.0 NG_056002.2 aminoglycoside O-phosphotransferase APH(3’’)-Ib STREPTOMYCIN
contig00118 570 1406 aph(6)-Id 0/0 100.0 100.0 NG_047464.1 aminoglycoside O-phosphotransferase APH(6)-Id STREPTOMYCIN
contig00123 1704 2579 blaCTX-M-15 0/0 100.0 100.0 NG_048935.1 class A extended-spectrum beta-lactamase CTX-M-15 CEPHALOSPORIN
contig00136 578 1408 blaOXA-1 0/0 100.0 100.0 NG_049392.1 oxacillin-hydrolyzing class D beta-lactamase OXA-1 CEPHALOSPORIN
contig00079 4012 4872 blaTEM-1 0/0 100.0 100.0 NG_050145.1 class A broad-spectrum beta-lactamase TEM-1 BETA-LACTAM
contig00158 350 1004 catA1 0/0 99.2 99.8 NG_047582.1 type A-1 chloramphenicol O-acetyltransferase CHLORAMPHENICOL
contig00114 3115 3588 dfrA14 0/0 100.0 100.0 NG_056035.1 trimethoprim-resistant dihydrofolate reductase DfrA14 TRIMETHOPRIM
contig00023 5385 5810 fosA 0/0 100.0 95.8 NG_050405.1 fosfomycin resistance glutathione transferase FosA FOSFOMYCIN
contig00151 68 989 mph(A) 1/1 100.0 99.7 NG_047986.1 Mph(A) family macrolide 2’-phosphotransferase MACROLIDE
contig00093 4404 5048 qnrB1 0/0 100.0 100.0 NG_050469.1 quinolone resistance pentapeptide repeat protein QnrB1 QUINOLONE
contig00003 5111 5755 qnrE1 0/0 100.0 99.1 NG_054677.1 quinolone resistance pentapeptide repeat protein QnrE1 QUINOLONE
contig00118 2270 3085 sul2 0/0 100.0 100.0 NG_051852.1 sulfonamide-resistant dihydropteroate synthase Sul2 SULFONAMIDE
contig00115 1526 2725 tet(A) 0/0 100.0 100.0 NG_048157.1 tetracycline efflux MFS transporter Tet(A) TETRACYCLINE
MEGARES
Contig Start End Gene Gaps Coverage Identity Accession Product Resistance
contig00104 1309 2169 AAC3 0/0 100.0 100.0 MEG_64 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 NA
contig00131 1695 2555 AAC3 0/0 100.0 99.8 MEG_44 Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 NA
contig00022 76314 77507 ACRB 0/0 100.0 91.9 MEG_402 Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB NA
contig00156 126 1090 ANT3-DPRIME 3/7 99.3 99.1 MEG_949 Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME NA
contig00118 1406 2233 APH3-DPRIME 0/0 100.0 100.0 MEG_1019 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME NA
contig00118 570 1406 APH6 0/0 100.0 100.0 MEG_1086 Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 NA
contig00158 339 1004 CATA 0/0 99.2 100.0 MEG_1593 Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA NA
contig00114 3115 3588 DFRA 0/0 100.0 99.8 MEG_2517 Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA NA
contig00023 5385 5966 FOSA 0/0 100.0 93.0 MEG_2990 Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA NA
contig00151 68 989 MPHA 1/1 100.0 99.7 MEG_4030 Drugs:MLS:Macrolide_phosphotransferases:MPHA NA
contig00136 578 1408 OXA 0/0 100.0 100.0 MEG_4980 Drugs:betalactams:Class_D_betalactamases:OXA NA
contig00093 4367 5048 QNRB 1/1 100.0 99.1 MEG_5928 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRB NA
contig00003 5111 5755 QNRE 0/0 100.0 99.1 MEG_6016 Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRE NA
contig00118 2270 3085 SULII 0/0 100.0 100.0 MEG_6617 Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII NA
contig00079 3645 4890 TEM 0/0 98.3 99.4 MEG_6875 Drugs:betalactams:Class_A_betalactamases:TEM NA
contig00115 1526 2725 TETA 0/0 100.0 100.0 MEG_7021 Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA NA


Summary figures

Presence/Absence of antibiotic resistance genes (coverage and identity > 90%) on each sample

Select the database
Resfinder
CARD
ARG-ANNOT
NCBI
MEGARES


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Plasmid Profiling


Field Description
Contig Contig name where the gene was found
Start Start position of the gene within the contig
End End position of the gene within the contig
Gene Antibiotic resistance gene
Gaps Gaps in subject (genome) and query (antibiotic resistance gene)
Coverage Proportion (%) of the gene covered
Identity Proportion (%) of exact nucleotide matches
Accession Accesion number of the antibiotic resistance gene
Product Antibiotic resistance gene product


Select sample

ID001
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00049 23871 24430 IncFIB(pECLA)_1_pECLA 0/0 100 99.6 CP001919 IncFIB(pECLA)_1_pECLA_CP001919
contig00093 1477 2223 IncFII(pECLA)_1_pECLA 0/0 100 99.6 CP001919 IncFII(pECLA)_1_pECLA_CP001919
ID013II
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00037 39697 40023 IncHI2_1 0/0 100 100 BX664015 IncHI2_1__BX664015
contig00036 5790 6419 IncHI2A_1 0/0 100 100 BX664015 IncHI2A_1__BX664015
ID038
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00036 6991 7737 IncFII(pECLA)_1_pECLA 0/0 100 97.9 CP001919 IncFII(pECLA)_1_pECLA_CP001919
contig00030 22343 22669 IncHI2_1 0/0 100 100.0 BX664015 IncHI2_1__BX664015
contig00030 37535 38164 IncHI2A_1 0/0 100 100.0 BX664015 IncHI2A_1__BX664015
contig00052 11134 11384 IncR_1 0/0 100 99.6 DQ449578 IncR_1__DQ449578
ID086II
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00053 5287 5846 IncFIB(pECLA)_1_pECLA 0/0 100 100.0 CP001919 IncFIB(pECLA)_1_pECLA_CP001919
contig00068 682 1428 IncFII(pECLA)_1_pECLA 0/0 100 99.9 CP001919 IncFII(pECLA)_1_pECLA_CP001919
ID086
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00044 3630 3771 Col156_1 0/0 92.2 98.6 NC_009781 Col156_1__NC_009781
contig00031 8363 9044 IncFIB(AP001918)_1 0/0 100.0 96.6 AP001918 IncFIB(AP001918)_1__AP001918
contig00029 6095 6353 IncFII(29)_1_pUTI89 0/0 100.0 99.6 CP003035 IncFII(29)_1_pUTI89_CP003035
contig00018 64985 65749 IncY_1 0/0 100.0 99.7 K02380 IncY_1__K02380
ID267
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00338 4076 4229 Col156_1 0/0 100 94.8 NC_009781 Col156_1__NC_009781
contig00208 9859 10246 IncFIA_1 0/0 100 99.7 AP001918 IncFIA_1__AP001918
contig00165 1360 2041 IncFIB(AP001918)_1 0/0 100 98.4 AP001918 IncFIB(AP001918)_1__AP001918
contig00224 8852 9616 IncY_1 0/0 100 99.7 K02380 IncY_1__K02380
ORTHO006E
## [1] "NO PLASMID FOUND!!"
ORTHO008E
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00251 6337 6467 ColRNAI_1 1/1 100.0 90.8 DQ298019 ColRNAI_1__DQ298019
contig00409 777 1163 IncFIA(HI1)_1_HI1 0/0 99.7 98.5 AF250878 IncFIA(HI1)_1_HI1_AF250878
contig00237 3423 3982 IncFIB(K)_1_Kpn3 0/0 100.0 98.9 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00215 9508 9758 IncR_1 0/0 100.0 100.0 DQ449578 IncR_1__DQ449578
ORTHO014EII
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00067 3080 3193 Col440I_1 0/0 100 92.1 CP023920.1 Col440I_1__CP023920.1
ORTHO025EII
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00470 40 526 rep10_3_pNE131p1(pNE131) 1/2 99.6 99.6 NC001390 rep10_3_pNE131p1(pNE131)_NC001390
contig00916 51 987 rep15_1_repA(pLW043) 1/23 97.6 97.5 AE017171 rep15_1_repA(pLW043)_AE017171
contig00020 24394 25137 rep16_2_CDS6(pSJH101) 0/0 100.0 98.8 CP000737 rep16_2_CDS6(pSJH101)_CP000737
contig00020 25563 26546 rep19_13_rep(pBORa53) 0/0 100.0 99.2 AY917098 rep19_13_rep(pBORa53)_AY917098
contig00020 22246 23106 rep5a_1_repSAP001(pN315) 0/0 100.0 99.5 AP003139 rep5a_1_repSAP001(pN315)_AP003139
contig00274 3472 4426 rep7a_12_repC(pKH17) 1/10 100.0 98.4 NC010284 rep7a_12_repC(pKH17)_NC010284
contig00338 1532 2402 rep7a_7_rep(pKH7) 0/0 93.3 92.2 NC002096 rep7a_7_rep(pKH7)_NC002096
contig00007 14936 15756 rep7c_1_rep(MSSA476) 0/0 100.0 99.8 BX571857 rep7c_1_rep(MSSA476)_BX571857
ORTHO025E
Contig Start End Gene Gaps Coverage Identity Accession Product
contig00104 1100 1210 Col440I_1 0/0 97.4 92.8 CP023920.1 Col440I_1__CP023920.1
contig00095 3360 3919 IncFIB(K)_1_Kpn3 0/0 100.0 98.8 JN233704 IncFIB(K)_1_Kpn3_JN233704
contig00094 2722 2951 IncFII(Yp)_1_Yersenia 0/0 100.0 99.6 CP000670 IncFII(Yp)_1_Yersenia_CP000670
contig00026 35316 35642 IncHI2_1 0/0 100.0 100.0 BX664015 IncHI2_1__BX664015
contig00026 50508 51137 IncHI2A_1 0/0 100.0 100.0 BX664015 IncHI2A_1__BX664015


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Virulence Factor Determination


Field Description
Contig Contig name where the gene was found
Start Start position of the gene within the contig
End End position of the gene within the contig
Gene Antibiotic resistance gene
Coverage Proportion (%) of the gene covered
Identity Proportion (%) of exact nucleotide matches
Accession Accesion number of the antibiotic resistance gene
Product Antibiotic resistance gene product


Select the sample

ID001
Contig Start End Strand Gene Coverage Identity Accession Product
contig00008 91742 92575 + csgG 100.0 80.7 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00023 42378 43423 + ompA 98.8 84.3 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
ID013II
Contig Start End Strand Gene Coverage Identity Accession Product
contig00003 191814 192647 + csgG 99.9 81.2 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00004 19062 20117 + ompA 100.0 84.4 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
ID038
Contig Start End Strand Gene Coverage Identity Accession Product
contig00002 24652 25481 - csgG 99.4 80.8 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00015 89169 90019 - entB 99.1 80.0 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00011 36876 38038 - iroB 99.9 89.8 NP_753168 (iroB) glucosyltransferase IroB [Salmochelin (IA013)] [Escherichia coli CFT073]
contig00011 33089 36816 - iroC 99.6 89.1 NP_753167 (iroC) ATP binding cassette transporter [Salmochelin (IA013)] [Escherichia coli CFT073]
contig00011 31744 32973 - iroD 100.0 87.8 NP_753166 (iroD) esterase [Salmochelin (IA013)] [Escherichia coli CFT073]
contig00011 30716 31660 - iroE 98.8 86.0 NP_753165 (iroE) esterase [Salmochelin (IA013)] [Escherichia coli CFT073]
contig00011 28497 30671 + iroN 99.9 91.3 NP_753164 (iroN) salmochelin receptor IroN [IroN (VF0230)] [Escherichia coli CFT073]
contig00012 94869 95911 - ompA 99.0 84.7 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
ID086II
Contig Start End Strand Gene Coverage Identity Accession Product
contig00026 16647 17689 - ompA 99 84.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
ID086
Contig Start End Strand Gene Coverage Identity Accession Product
contig00039 10638 10943 - afaA 100.0 100.0 CAW30797 (afaA) fimbrial major subunit AfaA [Afimbrial adhesin AFA-I mannose-resistant adhesin (AI010)] [Escherichia coli O25b:H4 str. FV9863]
contig00039 9626 10370 - afaB-I 100.0 99.1 CAW30798 (afaB-I) chaperone AfaB [Afimbrial adhesin AFA-I mannose-resistant adhesin (AI010)] [Escherichia coli O25b:H4 str. FV9863]
contig00039 6951 9533 - afaC-I 100.0 98.8 CAW30799 (afaC-I) usher AfaC [Afimbrial adhesin AFA-I mannose-resistant adhesin (AI010)] [Escherichia coli O25b:H4 str. FV9863]
contig00039 6492 6935 - afaD 100.0 94.4 CAW30800 (afaD) AfaD [Afimbrial adhesin AFA-I mannose-resistant adhesin (AI010)] [Escherichia coli O25b:H4 str. FV9863]
contig00015 71278 72706 + aslA 100.0 98.2 AAG10151 (aslA) putative arylsulfatase [AslA (VF0238)] [Escherichia coli O18:K1:H7 str. RS218]
contig00010 172148 174094 - chuA 100.0 99.5 NP_756170 (chuA) Outer membrane heme/hemoglobin receptor ChuA [Chu (VF0227)] [Escherichia coli CFT073]
contig00010 171071 172099 - chuS 100.0 99.0 NP_756169 (chuS) heme oxygenase ChuS [Chu (VF0227)] [Escherichia coli CFT073]
contig00010 174737 175729 + chuT 100.0 99.8 NP_756175 (chuT) periplasmic heme-binding protein ChuT [Chu (VF0227)] [Escherichia coli CFT073]
contig00010 178265 179257 + chuU 100.0 99.3 NP_756179 (chuU) heme permease protein ChuU [Chu (VF0227)] [Escherichia coli CFT073]
contig00010 179224 180024 + chuV 100.0 99.8 NP_756180 (chuV) ATP-binding hydrophilic protein ChuV [Chu (VF0227)] [Escherichia coli CFT073]
contig00010 175749 177086 + chuW 100.0 99.2 NP_756176 (chuW) Putative oxygen independent coproporphyrinogen III oxidase [Chu (VF0227)] [Escherichia coli CFT073]
contig00010 177099 177593 + chuX 100.0 100.0 NP_756177 (chuX) putative heme-binding protein ChuX [Chu (VF0227)] [Escherichia coli CFT073]
contig00010 177593 178216 + chuY 100.0 98.4 NP_756178 (chuY) ChuY [Chu (VF0227)] [Escherichia coli CFT073]
contig00007 100536 100991 - csgB 99.8 83.8 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00007 101744 102394 + csgD 100.0 81.6 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00007 102813 103229 + csgF 99.0 80.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00007 103256 104089 + csgG 100.0 83.2 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00104 383 610 + daaF 100.0 98.7 AAA23662 (daaF) DaaF protein [F1845 fimbrial adhesin (AI016)] [Escherichia coli str. C1845]
contig00039 5912 6085 - draP 100.0 98.8 AAK16479 (draP) DraP [Dr adhesins (VF0223)] [Escherichia coli O75:K5:H- str. IH11128]
contig00001 281533 282279 - entA 100.0 98.1 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 282279 283136 - entB 100.0 99.5 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 284770 285957 - entC 100.0 99.4 NP_752611 (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 300415 301076 + entD 85.9 97.7 NP_752599 (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 283150 284760 - entE 100.0 99.1 NP_752612 (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 292634 296487 - entF 99.3 97.8 NP_752604 (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 287094 288344 - entS 100.0 98.3 NP_752609 (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073]
contig00001 573844 578091 - fdeC 99.9 97.4 YP_002390132 (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88]
contig00001 298150 300390 + fepA 100.0 98.8 NP_752600 (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 286134 287090 + fepB 100.0 99.7 NP_752610 (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 290445 291260 + fepC 100.0 99.1 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 288443 289459 + fepD 100.0 97.8 NP_752608 (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 289456 290448 + fepG 100.0 97.7 NP_752607 (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00001 296705 297907 - fes 100.0 99.2 NP_752602 (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073]
contig00028 25810 26414 - fimA 99.8 90.8 NP_757241 (fimA) Type-1 fimbrial protein A chain precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00051 5424 6026 + fimB 100.0 97.8 NP_757239 (fimB) Type 1 fimbriae Regulatory protein fimB [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00028 24444 25169 - fimC 100.0 98.6 NP_757243 (fimC) Chaperone protein fimC precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00028 21741 24377 - fimD 100.0 98.9 NP_757244 (fimD) Outer membrane usher protein fimD precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00051 6504 7100 + fimE 100.0 98.8 NP_757240 (fimE) Type 1 fimbriae Regulatory protein fimE [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00028 21201 21734 - fimF 100.0 99.1 NP_757245 (fimF) FimF protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00028 20685 21188 - fimG 100.0 98.2 NP_757247 (fimG) FimG protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00028 19763 20674 - fimH 100.0 97.6 NP_757248 (fimH) FimH protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00028 25206 25745 - fimI 100.0 98.5 NP_757242 (fimI) Fimbrin-like protein fimI precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00035 7949 9970 + fyuA 100.0 99.9 NP_405467 (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00004 22553 23412 - gspL 99.9 94.7 YP_404608 (gspL) general secretion pathway protein L [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00004 22016 22437 - gspM 99.8 92.4 YP_404609 (gspM) general secretion pathway protein M [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00040 698 6181 + irp2 89.8 99.4 NP_405472 (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00034 2017 3798 + iucA 100.0 99.8 NP_709454 (iucA) aerobactin synthesis protein IucA [Aerobactin (VF0123)] [Shigella flexneri 2a str. 301]
contig00034 3799 4746 + iucB 100.0 99.8 NP_709455 (iucB) aerobactin synthesis protein IucB [Aerobactin (VF0123)] [Shigella flexneri 2a str. 301]
contig00034 4746 6488 + iucC 100.0 98.1 NP_755500 (iucC) aerobactin siderophore biosynthesis protein IucC [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00034 6485 7806 + iucD 98.8 96.3 NP_755499 (iucD) L-lysine 6-monooxygenase IucD [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00034 7744 10045 + iutA 100.0 88.4 NP_755498 (iutA) ferric aerobactin receptor precusor IutA [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00004 5868 7544 + kpsD 100.0 98.8 AAA21682 (kpsD) KpsD [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218]
contig00004 20065 20841 - kpsM 100.0 91.1 AAA24046 (kpsM) KpsM [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218]
contig00007 170971 172023 + ompA 100.0 95.8 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00070 760 1073 - papB 99.7 98.4 (papB) regulatory protein PapB [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00070 1479 1712 + papI 100.0 94.9 NP_755468 (papI) regulatory protein PapI [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00105 256 807 + papX 100.0 97.6 NP_755457 (papX) PapX protein regulates flagellum synthesis to repress motility [P fimbriae (CVF425)] [Escherichia coli CFT073]
contig00034 10977 14876 + sat 100.0 99.5 NP_755494 (sat) Aecreted auto transpoter toxin [Sat (VF0231)] [Escherichia coli CFT073]
contig00044 8438 9576 + senB 99.9 99.7 YP_406304 (senB) enterotoxin [ShET2 (VF0258)] [Shigella flexneri 2a str. 301]
contig00001 593429 594182 + yagV/ecpE 99.7 98.0 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00001 591862 593505 + yagW/ecpD 100.0 99.1 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00001 589347 591872 + yagX/ecpC 100.0 97.6 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00001 588653 589321 + yagY/ecpB 100.0 98.1 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00001 588009 588596 + yagZ/ecpA 100.0 98.3 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00003 312257 313216 + ybtA 100.0 99.5 NP_405473 (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00035 6240 7817 + ybtE 100.0 99.8 NP_405468 (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00003 310288 312090 - ybtP 100.0 99.6 NP_405474 (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00003 308499 310301 - ybtQ 100.0 99.6 NP_405475 (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00003 305894 307198 - ybtS 100.0 99.8 NP_405477 (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00035 5433 6236 + ybtT 100.0 99.5 NP_405469 (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00035 4336 5436 + ybtU 100.0 99.6 NP_405470 (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00003 307226 308506 - ybtX 100.0 99.5 NP_405476 (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00001 587344 587934 + ykgK/ecpR 100.0 99.5 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ID267
Contig Start End Strand Gene Coverage Identity Accession Product
contig00018 16823 18251 - aslA 100.0 97.1 AAG10151 (aslA) putative arylsulfatase [AslA (VF0238)] [Escherichia coli O18:K1:H7 str. RS218]
contig00036 56535 57335 - chuV 100.0 98.9 NP_756180 (chuV) ATP-binding hydrophilic protein ChuV [Chu (VF0227)] [Escherichia coli CFT073]
contig00277 1630 2967 - chuW 100.0 96.7 NP_756176 (chuW) Putative oxygen independent coproporphyrinogen III oxidase [Chu (VF0227)] [Escherichia coli CFT073]
contig00277 500 1123 - chuY 100.0 97.0 NP_756178 (chuY) ChuY [Chu (VF0227)] [Escherichia coli CFT073]
contig00041 49942 50397 + csgB 99.8 83.8 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00041 48537 49187 - csgD 100.0 81.4 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00041 47702 48118 - csgF 99.0 81.0 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00041 46842 47675 - csgG 100.0 83.3 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00034 53819 54565 + entA 100.0 95.2 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 52962 53819 + entB 100.0 98.5 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 50141 51328 + entC 100.0 97.6 NP_752611 (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 34914 35684 - entD 100.0 92.1 NP_752599 (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 51338 52948 + entE 100.0 97.3 NP_752612 (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 39612 43465 + entF 99.2 95.2 NP_752604 (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 47754 49004 + entS 100.0 96.4 NP_752609 (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073]
contig00190 13934 15832 - espL1 100.0 96.5 NP_288154 (espL1) Type III secretion system effector espL1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00039 6942 9128 - espL4 100.0 96.5 NP_290644 (espL4) Type III secretion system effector EspL4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00024 52924 54176 + espR1 99.4 94.0 NP_287686 (espR1) Type III secretion system effector espR1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00015 2519 3627 - espR4 97.2 84.4 NP_288396 (espR4) Type III secretion system effector espR4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00012 80977 82398 + espX1 100.0 96.1 NP_285716 (espX1) Type III secretion system effector EspX1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00039 42127 43707 + espX4 100.0 95.9 NP_290672 (espX4) Type III secretion system effector EspX4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00032 42646 43938 + espX5 100.0 96.0 NP_290699 (espX5) Type III secretion system effector EspX5 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00012 41080 41831 - espY1 99.9 95.8 NP_285753 (espY1) Type III secretion system effector EspY1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00012 24133 24702 - espY2 100.0 94.9 NP_285765 (espY2) Type III secretion system effector EspY2 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00005 64735 66306 - espY3 100.0 95.9 NP_286160 (espY3) Type III secretion system effector EspY3 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00349 983 3390 + espY4 100.0 96.2 NP_290352 (espY4) Type III secretion system effector EspY4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00020 6392 10642 - fdeC 100.0 95.3 YP_002390132 (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88]
contig00034 35709 37949 - fepA 100.0 96.8 NP_752600 (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 49008 49964 - fepB 100.0 97.9 NP_752610 (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 44838 45653 - fepC 100.0 97.3 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 46639 47655 - fepD 100.0 96.4 NP_752608 (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 45650 46642 - fepG 100.0 95.3 NP_752607 (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 38192 39394 + fes 100.0 96.8 NP_752602 (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073]
contig00013 59321 59932 + fimA 100.0 88.4 NP_757241 (fimA) Type-1 fimbrial protein A chain precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 57221 57823 + fimB 100.0 98.2 NP_757239 (fimB) Type 1 fimbriae Regulatory protein fimB [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 60573 61298 + fimC 100.0 98.5 NP_757243 (fimC) Chaperone protein fimC precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 61365 64001 + fimD 100.0 98.5 NP_757244 (fimD) Outer membrane usher protein fimD precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 58300 58894 + fimE 99.7 99.3 NP_757240 (fimE) Type 1 fimbriae Regulatory protein fimE [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 64008 64541 + fimF 100.0 97.8 NP_757245 (fimF) FimF protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 64554 65057 + fimG 100.0 98.0 NP_757247 (fimG) FimG protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 65068 65979 + fimH 100.0 97.3 NP_757248 (fimH) FimH protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 59997 60536 + fimI 100.0 98.9 NP_757242 (fimI) Fimbrin-like protein fimI precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00015 63561 65582 + fyuA 100.0 100.0 NP_405467 (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00168 2431 3261 + gspC 100.0 94.6 YP_404599 (gspC) general secretion pathway protein C [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 3501 5351 + gspD 100.0 95.3 YP_404600 (gspD) general secretion pathway protein D [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 5351 6844 + gspE 100.0 95.0 YP_404601 (gspE) general secretion pathway protein E [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 6844 8043 + gspF 100.0 95.2 YP_404602 (gspF) general secretion pathway protein F [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 8084 8539 + gspG 100.0 98.0 YP_404603 (gspG) general secretion pathway protein G [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 8576 9106 + gspH 100.0 95.9 YP_404604 (gspH) general secretion pathway protein H [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 9103 9474 + gspI 100.0 96.0 YP_404605 (gspI) general secretion pathway protein I [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 9507 10076 + gspJ 100.0 95.3 YP_404606 (gspJ) general secretion pathway protein J [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 10073 11050 + gspK 100.0 96.6 YP_404607 (gspK) general secretion pathway protein K [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 11365 12225 + gspL 100.0 95.0 YP_404608 (gspL) general secretion pathway protein L [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 12341 12762 + gspM 99.8 92.2 YP_404609 (gspM) general secretion pathway protein M [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00015 50461 59952 + irp1 100.0 99.7 NP_405471 (irp1) yersiniabactin biosynthetic protein Irp1 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 44266 50373 + irp2 100.0 99.5 NP_405472 (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00103 12994 14781 + iucA 100.0 100.0 NP_755502 (iucA) aerobactin siderophore biosynthesis protein IucD [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00103 14782 15729 + iucB 100.0 99.9 NP_755501 (iucB) aerobactin siderophore biosynthesis protein IucB [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00103 15729 17471 + iucC 100.0 100.0 NP_755500 (iucC) aerobactin siderophore biosynthesis protein IucC [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00103 17468 18805 + iucD 100.0 100.0 NP_755499 (iucD) L-lysine 6-monooxygenase IucD [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00103 18727 21006 + iutA 100.0 100.0 NP_755498 (iutA) ferric aerobactin receptor precusor IutA [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00121 12014 13690 - kpsD 100.0 98.2 AAA21682 (kpsD) KpsD [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218]
contig00168 13819 14595 + kpsM 100.0 94.2 AAA24046 (kpsM) KpsM [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218]
contig00113 9287 10339 - ompA 100.0 95.2 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00260 1648 4170 + papC 100.0 99.8 NP_755465 (papC) usher protein PapC [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 4370 4975 + papD 100.0 100.0 NP_755464 (papD) chaperone protein PapD [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 6738 7268 + papF 100.0 99.2 NP_755459 (papF) P pilus minor subunit PapF [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 7312 8322 + papG 100.0 98.3 NP_755458 (papG) P pilus tip adhesin PapG [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 1014 1601 + papH 100.0 99.2 NP_755466 (papH) P pilus termination subunit PapH [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00330 4864 5097 - papI 100.0 100.0 NP_755468 (papI) regulatory protein PapI [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 5012 5593 + papJ 100.0 98.8 NP_755463 (papJ) P pilus assembly protein PapJ [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 5600 6139 + papK 100.0 99.4 NP_755461 (papK) P pilus minor subunit PapK [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 8585 9136 + papX 100.0 100.0 NP_755457 (papX) PapX protein regulates flagellum synthesis to repress motility [P fimbriae (CVF425)] [Escherichia coli CFT073]
contig00103 21938 25837 + sat 100.0 99.9 NP_755494 (sat) Aecreted auto transpoter toxin [Sat (VF0231)] [Escherichia coli CFT073]
contig00277 4585 6567 + shuA 100.0 98.5 YP_405019 (shuA) outer membrane heme/hemoglobin receptor ShuA [Shu (VF0256)] [Shigella dysenteriae Sd197]
contig00277 6616 7644 + shuS 100.0 96.5 YP_405020 (shuS) heme/hemoglobin transport protein ShuS [Shu (VF0256)] [Shigella dysenteriae Sd197]
contig00277 2987 3979 - shuT 100.0 98.3 YP_405017 (shuT) periplasmic binding protein ShuT [Shu (VF0256)] [Shigella dysenteriae Sd197]
contig00277 1123 1617 - shuX 100.0 96.4 YP_405016 (shuX) shu locus protein ShuX [Shu (VF0256)] [Shigella dysenteriae Sd197]
contig00020 26077 26830 + yagV/ecpE 99.7 97.9 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00020 24510 26153 + yagW/ecpD 100.0 98.9 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00020 21995 24520 + yagX/ecpC 100.0 97.9 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00020 21301 21969 + yagY/ecpB 100.0 97.5 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00020 20657 21244 + yagZ/ecpA 100.0 99.0 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00015 43116 44075 + ybtA 100.0 99.5 NP_405473 (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 61853 63430 + ybtE 100.0 99.9 NP_405468 (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 41147 42949 - ybtP 100.0 99.7 NP_405474 (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 39358 41160 - ybtQ 100.0 99.7 NP_405475 (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 36753 38057 - ybtS 100.0 99.8 NP_405477 (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 61046 61849 + ybtT 100.0 99.8 NP_405469 (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 59949 61049 + ybtU 100.0 99.6 NP_405470 (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 38085 39365 - ybtX 100.0 99.6 NP_405476 (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00020 19992 20582 + ykgK/ecpR 100.0 99.0 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ORTHO006E
## Error in read.table("ORTHO006E_vfdb.tab", header = T, sep = "\t", dec = ".", : no lines available in input
Contig Start End Strand Gene Coverage Identity Accession Product
contig00018 16823 18251 - aslA 100.0 97.1 AAG10151 (aslA) putative arylsulfatase [AslA (VF0238)] [Escherichia coli O18:K1:H7 str. RS218]
contig00036 56535 57335 - chuV 100.0 98.9 NP_756180 (chuV) ATP-binding hydrophilic protein ChuV [Chu (VF0227)] [Escherichia coli CFT073]
contig00277 1630 2967 - chuW 100.0 96.7 NP_756176 (chuW) Putative oxygen independent coproporphyrinogen III oxidase [Chu (VF0227)] [Escherichia coli CFT073]
contig00277 500 1123 - chuY 100.0 97.0 NP_756178 (chuY) ChuY [Chu (VF0227)] [Escherichia coli CFT073]
contig00041 49942 50397 + csgB 99.8 83.8 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00041 48537 49187 - csgD 100.0 81.4 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00041 47702 48118 - csgF 99.0 81.0 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00041 46842 47675 - csgG 100.0 83.3 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00034 53819 54565 + entA 100.0 95.2 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 52962 53819 + entB 100.0 98.5 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 50141 51328 + entC 100.0 97.6 NP_752611 (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 34914 35684 - entD 100.0 92.1 NP_752599 (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 51338 52948 + entE 100.0 97.3 NP_752612 (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 39612 43465 + entF 99.2 95.2 NP_752604 (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 47754 49004 + entS 100.0 96.4 NP_752609 (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073]
contig00190 13934 15832 - espL1 100.0 96.5 NP_288154 (espL1) Type III secretion system effector espL1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00039 6942 9128 - espL4 100.0 96.5 NP_290644 (espL4) Type III secretion system effector EspL4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00024 52924 54176 + espR1 99.4 94.0 NP_287686 (espR1) Type III secretion system effector espR1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00015 2519 3627 - espR4 97.2 84.4 NP_288396 (espR4) Type III secretion system effector espR4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00012 80977 82398 + espX1 100.0 96.1 NP_285716 (espX1) Type III secretion system effector EspX1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00039 42127 43707 + espX4 100.0 95.9 NP_290672 (espX4) Type III secretion system effector EspX4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00032 42646 43938 + espX5 100.0 96.0 NP_290699 (espX5) Type III secretion system effector EspX5 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00012 41080 41831 - espY1 99.9 95.8 NP_285753 (espY1) Type III secretion system effector EspY1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00012 24133 24702 - espY2 100.0 94.9 NP_285765 (espY2) Type III secretion system effector EspY2 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00005 64735 66306 - espY3 100.0 95.9 NP_286160 (espY3) Type III secretion system effector EspY3 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00349 983 3390 + espY4 100.0 96.2 NP_290352 (espY4) Type III secretion system effector EspY4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00020 6392 10642 - fdeC 100.0 95.3 YP_002390132 (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88]
contig00034 35709 37949 - fepA 100.0 96.8 NP_752600 (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 49008 49964 - fepB 100.0 97.9 NP_752610 (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 44838 45653 - fepC 100.0 97.3 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 46639 47655 - fepD 100.0 96.4 NP_752608 (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 45650 46642 - fepG 100.0 95.3 NP_752607 (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00034 38192 39394 + fes 100.0 96.8 NP_752602 (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073]
contig00013 59321 59932 + fimA 100.0 88.4 NP_757241 (fimA) Type-1 fimbrial protein A chain precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 57221 57823 + fimB 100.0 98.2 NP_757239 (fimB) Type 1 fimbriae Regulatory protein fimB [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 60573 61298 + fimC 100.0 98.5 NP_757243 (fimC) Chaperone protein fimC precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 61365 64001 + fimD 100.0 98.5 NP_757244 (fimD) Outer membrane usher protein fimD precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 58300 58894 + fimE 99.7 99.3 NP_757240 (fimE) Type 1 fimbriae Regulatory protein fimE [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 64008 64541 + fimF 100.0 97.8 NP_757245 (fimF) FimF protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 64554 65057 + fimG 100.0 98.0 NP_757247 (fimG) FimG protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 65068 65979 + fimH 100.0 97.3 NP_757248 (fimH) FimH protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00013 59997 60536 + fimI 100.0 98.9 NP_757242 (fimI) Fimbrin-like protein fimI precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00015 63561 65582 + fyuA 100.0 100.0 NP_405467 (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00168 2431 3261 + gspC 100.0 94.6 YP_404599 (gspC) general secretion pathway protein C [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 3501 5351 + gspD 100.0 95.3 YP_404600 (gspD) general secretion pathway protein D [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 5351 6844 + gspE 100.0 95.0 YP_404601 (gspE) general secretion pathway protein E [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 6844 8043 + gspF 100.0 95.2 YP_404602 (gspF) general secretion pathway protein F [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 8084 8539 + gspG 100.0 98.0 YP_404603 (gspG) general secretion pathway protein G [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 8576 9106 + gspH 100.0 95.9 YP_404604 (gspH) general secretion pathway protein H [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 9103 9474 + gspI 100.0 96.0 YP_404605 (gspI) general secretion pathway protein I [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 9507 10076 + gspJ 100.0 95.3 YP_404606 (gspJ) general secretion pathway protein J [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 10073 11050 + gspK 100.0 96.6 YP_404607 (gspK) general secretion pathway protein K [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 11365 12225 + gspL 100.0 95.0 YP_404608 (gspL) general secretion pathway protein L [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00168 12341 12762 + gspM 99.8 92.2 YP_404609 (gspM) general secretion pathway protein M [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00015 50461 59952 + irp1 100.0 99.7 NP_405471 (irp1) yersiniabactin biosynthetic protein Irp1 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 44266 50373 + irp2 100.0 99.5 NP_405472 (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00103 12994 14781 + iucA 100.0 100.0 NP_755502 (iucA) aerobactin siderophore biosynthesis protein IucD [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00103 14782 15729 + iucB 100.0 99.9 NP_755501 (iucB) aerobactin siderophore biosynthesis protein IucB [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00103 15729 17471 + iucC 100.0 100.0 NP_755500 (iucC) aerobactin siderophore biosynthesis protein IucC [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00103 17468 18805 + iucD 100.0 100.0 NP_755499 (iucD) L-lysine 6-monooxygenase IucD [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00103 18727 21006 + iutA 100.0 100.0 NP_755498 (iutA) ferric aerobactin receptor precusor IutA [Aerobactin (VF0229)] [Escherichia coli CFT073]
contig00121 12014 13690 - kpsD 100.0 98.2 AAA21682 (kpsD) KpsD [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218]
contig00168 13819 14595 + kpsM 100.0 94.2 AAA24046 (kpsM) KpsM [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218]
contig00113 9287 10339 - ompA 100.0 95.2 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00260 1648 4170 + papC 100.0 99.8 NP_755465 (papC) usher protein PapC [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 4370 4975 + papD 100.0 100.0 NP_755464 (papD) chaperone protein PapD [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 6738 7268 + papF 100.0 99.2 NP_755459 (papF) P pilus minor subunit PapF [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 7312 8322 + papG 100.0 98.3 NP_755458 (papG) P pilus tip adhesin PapG [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 1014 1601 + papH 100.0 99.2 NP_755466 (papH) P pilus termination subunit PapH [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00330 4864 5097 - papI 100.0 100.0 NP_755468 (papI) regulatory protein PapI [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 5012 5593 + papJ 100.0 98.8 NP_755463 (papJ) P pilus assembly protein PapJ [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 5600 6139 + papK 100.0 99.4 NP_755461 (papK) P pilus minor subunit PapK [P fimbriae (VF0220)] [Escherichia coli CFT073]
contig00260 8585 9136 + papX 100.0 100.0 NP_755457 (papX) PapX protein regulates flagellum synthesis to repress motility [P fimbriae (CVF425)] [Escherichia coli CFT073]
contig00103 21938 25837 + sat 100.0 99.9 NP_755494 (sat) Aecreted auto transpoter toxin [Sat (VF0231)] [Escherichia coli CFT073]
contig00277 4585 6567 + shuA 100.0 98.5 YP_405019 (shuA) outer membrane heme/hemoglobin receptor ShuA [Shu (VF0256)] [Shigella dysenteriae Sd197]
contig00277 6616 7644 + shuS 100.0 96.5 YP_405020 (shuS) heme/hemoglobin transport protein ShuS [Shu (VF0256)] [Shigella dysenteriae Sd197]
contig00277 2987 3979 - shuT 100.0 98.3 YP_405017 (shuT) periplasmic binding protein ShuT [Shu (VF0256)] [Shigella dysenteriae Sd197]
contig00277 1123 1617 - shuX 100.0 96.4 YP_405016 (shuX) shu locus protein ShuX [Shu (VF0256)] [Shigella dysenteriae Sd197]
contig00020 26077 26830 + yagV/ecpE 99.7 97.9 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00020 24510 26153 + yagW/ecpD 100.0 98.9 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00020 21995 24520 + yagX/ecpC 100.0 97.9 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00020 21301 21969 + yagY/ecpB 100.0 97.5 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00020 20657 21244 + yagZ/ecpA 100.0 99.0 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00015 43116 44075 + ybtA 100.0 99.5 NP_405473 (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 61853 63430 + ybtE 100.0 99.9 NP_405468 (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 41147 42949 - ybtP 100.0 99.7 NP_405474 (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 39358 41160 - ybtQ 100.0 99.7 NP_405475 (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 36753 38057 - ybtS 100.0 99.8 NP_405477 (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 61046 61849 + ybtT 100.0 99.8 NP_405469 (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 59949 61049 + ybtU 100.0 99.6 NP_405470 (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00015 38085 39365 - ybtX 100.0 99.6 NP_405476 (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92]
contig00020 19992 20582 + ykgK/ecpR 100.0 99.0 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ORTHO008E
Contig Start End Strand Gene Coverage Identity Accession Product
contig00002 302085 302390 - afaA 100.0 100.0 CAW30797 (afaA) fimbrial major subunit AfaA [Afimbrial adhesin AFA-I mannose-resistant adhesin (AI010)] [Escherichia coli O25b:H4 str. FV9863]
contig00002 301029 301773 - afaB-I 100.0 99.7 CAW30798 (afaB-I) chaperone AfaB [Afimbrial adhesin AFA-I mannose-resistant adhesin (AI010)] [Escherichia coli O25b:H4 str. FV9863]
contig00002 298354 300936 - afaC-I 100.0 99.7 CAW30799 (afaC-I) usher AfaC [Afimbrial adhesin AFA-I mannose-resistant adhesin (AI010)] [Escherichia coli O25b:H4 str. FV9863]
contig00017 64595 66023 + aslA 100.0 97.3 AAG10151 (aslA) putative arylsulfatase [AslA (VF0238)] [Escherichia coli O18:K1:H7 str. RS218]
contig00004 186108 187136 - chuS 100.0 98.0 NP_756169 (chuS) heme oxygenase ChuS [Chu (VF0227)] [Escherichia coli CFT073]
contig00004 189773 190765 + chuT 100.0 98.5 NP_756175 (chuT) periplasmic heme-binding protein ChuT [Chu (VF0227)] [Escherichia coli CFT073]
contig00004 193301 194293 + chuU 100.0 98.9 NP_756179 (chuU) heme permease protein ChuU [Chu (VF0227)] [Escherichia coli CFT073]
contig00004 194260 195060 + chuV 100.0 99.2 NP_756180 (chuV) ATP-binding hydrophilic protein ChuV [Chu (VF0227)] [Escherichia coli CFT073]
contig00004 190785 192122 + chuW 100.0 98.0 NP_756176 (chuW) Putative oxygen independent coproporphyrinogen III oxidase [Chu (VF0227)] [Escherichia coli CFT073]
contig00004 192135 192629 + chuX 100.0 97.8 NP_756177 (chuX) putative heme-binding protein ChuX [Chu (VF0227)] [Escherichia coli CFT073]
contig00004 192629 193252 + chuY 100.0 98.4 NP_756178 (chuY) ChuY [Chu (VF0227)] [Escherichia coli CFT073]
contig00013 62165 62620 - csgB 99.8 83.6 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00013 63375 64025 + csgD 100.0 81.3 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00013 64444 64860 + csgF 99.0 81.2 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00013 64887 65720 + csgG 100.0 83.0 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00019 74399 75228 + csgG 99.4 80.6 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00337 1 203 + daaF 89.0 100.0 AAA23662 (daaF) DaaF protein [F1845 fimbrial adhesin (AI016)] [Escherichia coli str. C1845]
contig00002 297895 298338 - draD 100.0 99.8 AAK16478 (draD) DraD periplasmic protein [Dr adhesins (VF0223)] [Escherichia coli O75:K5:H- str. IH11128]
contig00002 297350 297523 - draP 100.0 99.4 AAK16479 (draP) DraP [Dr adhesins (VF0223)] [Escherichia coli O75:K5:H- str. IH11128]
contig00012 83027 83773 - entA 100.0 97.3 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 83773 84630 - entB 100.0 99.0 NP_752613 (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 86264 87451 - entC 100.0 99.2 NP_752611 (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 101921 102554 + entD 82.2 93.1 NP_752599 (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 84644 86254 - entE 100.0 93.2 NP_752612 (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 94128 97981 - entF 99.3 97.1 NP_752604 (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 88588 89838 - entS 100.0 97.0 NP_752609 (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073]
contig00006 37159 39057 - espL1 100.0 96.0 NP_288154 (espL1) Type III secretion system effector espL1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00045 32344 33594 + espR1 99.3 94.6 NP_287686 (espR1) Type III secretion system effector espR1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00007 58092 59672 + espX4 100.0 95.8 NP_290672 (espX4) Type III secretion system effector EspX4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00001 145872 146441 - espY2 100.0 94.0 NP_285765 (espY2) Type III secretion system effector EspY2 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00023 44742 47150 + espY4 99.8 89.2 NP_290352 (espY4) Type III secretion system effector EspY4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933]
contig00028 24314 28561 + fdeC 99.9 92.4 YP_002390132 (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88]
contig00012 99644 101884 + fepA 100.0 97.2 NP_752600 (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 87628 88584 + fepB 100.0 98.0 NP_752610 (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 91939 92754 + fepC 100.0 97.3 NP_752606 (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 89937 90953 + fepD 100.0 95.9 NP_752608 (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 90950 91942 + fepG 100.0 94.5 NP_752607 (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00012 98199 99401 - fes 100.0 96.3 NP_752602 (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073]
contig00001 319127 319730 - fimA 99.7 89.6 NP_757241 (fimA) Type-1 fimbrial protein A chain precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00001 321230 321832 - fimB 100.0 98.3 NP_757239 (fimB) Type 1 fimbriae Regulatory protein fimB [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00001 317761 318486 - fimC 100.0 99.0 NP_757243 (fimC) Chaperone protein fimC precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00001 315058 317694 - fimD 100.0 98.8 NP_757244 (fimD) Outer membrane usher protein fimD precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00001 320156 320752 - fimE 100.0 99.2 NP_757240 (fimE) Type 1 fimbriae Regulatory protein fimE [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00001 314518 315051 - fimF 100.0 97.6 NP_757245 (fimF) FimF protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00001 314002 314505 - fimG 100.0 99.2 NP_757247 (fimG) FimG protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00001 313080 313991 - fimH 100.0 98.8 NP_757248 (fimH) FimH protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00001 318523 319062 - fimI 100.0 99.3 NP_757242 (fimI) Fimbrin-like protein fimI precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073]
contig00058 25185 26015 + gspC 100.0 95.0 YP_404599 (gspC) general secretion pathway protein C [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00058 26255 28105 + gspD 100.0 96.2 YP_404600 (gspD) general secretion pathway protein D [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00058 28105 29598 + gspE 100.0 94.9 YP_404601 (gspE) general secretion pathway protein E [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00058 29598 30797 + gspF 100.0 94.2 YP_404602 (gspF) general secretion pathway protein F [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00058 30838 31293 + gspG 100.0 96.3 YP_404603 (gspG) general secretion pathway protein G [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00058 31330 31860 + gspH 100.0 94.7 YP_404604 (gspH) general secretion pathway protein H [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00058 31857 32228 + gspI 100.0 92.5 YP_404605 (gspI) general secretion pathway protein I [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00058 32261 32830 + gspJ 100.0 94.6 YP_404606 (gspJ) general secretion pathway protein J [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00058 32827 33804 + gspK 100.0 97.0 YP_404607 (gspK) general secretion pathway protein K [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00058 34119 34979 + gspL 100.0 94.4 YP_404608 (gspL) general secretion pathway protein L [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00058 35095 35516 + gspM 99.8 94.1 YP_404609 (gspM) general secretion pathway protein M [T2SS (VF0333)] [Shigella dysenteriae Sd197]
contig00027 24051 25213 - iroB 99.9 89.8 NP_753168 (iroB) glucosyltransferase IroB [Salmochelin (IA013)] [Escherichia coli CFT073]
contig00027 20264 23991 - iroC 99.6 89.0 NP_753167 (iroC) ATP binding cassette transporter [Salmochelin (IA013)] [Escherichia coli CFT073]
contig00027 18919 20148 - iroD 100.0 87.6 NP_753166 (iroD) esterase [Salmochelin (IA013)] [Escherichia coli CFT073]
contig00027 17891 18835 - iroE 98.8 85.9 NP_753165 (iroE) esterase [Salmochelin (IA013)] [Escherichia coli CFT073]
contig00027 15672 17846 + iroN 99.9 91.4 NP_753164 (iroN) salmochelin receptor IroN [IroN (VF0230)] [Escherichia coli CFT073]
contig00124 8600 10276 + kpsD 100.0 98.3 AAA21682 (kpsD) KpsD [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218]
contig00013 126973 127991 + ompA 96.7 95.3 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00121 12775 13817 - ompA 99.0 84.7 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
contig00004 187185 189167 - shuA 100.0 98.1 YP_405019 (shuA) outer membrane heme/hemoglobin receptor ShuA [Shu (VF0256)] [Shigella dysenteriae Sd197]
contig00028 8147 8900 - yagV/ecpE 99.7 98.1 NP_286006 (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00028 8824 10467 - yagW/ecpD 100.0 99.0 NP_286007 (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00028 10457 12982 - yagX/ecpC 100.0 98.8 NP_286008 (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00028 13008 13676 - yagY/ecpB 100.0 99.0 NP_286009 (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00028 13734 14321 - yagZ/ecpA 100.0 99.0 NP_286010 (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
contig00028 14396 14986 - ykgK/ecpR 100.0 99.7 NP_286011 (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933]
ORTHO014EII
Contig Start End Strand Gene Coverage Identity Accession Product
contig00004 3257 4090 - csgG 99.9 80.1 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00068 6647 7390 + entA 99.1 80.2 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00015 63257 64299 - ompA 99.0 84.6 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]
ORTHO025EII
Contig Start End Strand Gene Coverage Identity Accession Product
contig00024 10040 12358 + adsA 100.0 96.7 NP_644838 (adsA) Adenosine synthase A [AdsA (VF0422)] [Staphylococcus aureus subsp. aureus MW2]
contig00450 256 2562 - adsA 99.5 96.1 NP_644838 (adsA) Adenosine synthase A [AdsA (VF0422)] [Staphylococcus aureus subsp. aureus MW2]
contig00260 3403 4769 + aur 89.3 99.6 NP_647375 (aur) zinc metalloproteinase aureolysin [Aureolysin (VF0024)] [Staphylococcus aureus subsp. aureus MW2]
contig00007 9770 10286 - cap8A 100.0 99.4 NP_644939 (cap8A) capsular polysaccharide synthesis enzyme [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00573 1 424 + cap8A 82.0 94.8 NP_644939 (cap8A) capsular polysaccharide synthesis enzyme [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00007 8916 9602 - cap8B 100.0 99.0 NP_644940 (cap8B) capsular polysaccharide synthesis enzyme Cap8B [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00573 592 1278 + cap8B 100.0 93.9 NP_644940 (cap8B) capsular polysaccharide synthesis enzyme Cap8B [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00007 8149 8913 - cap8C 100.0 99.5 NP_644941 (cap8C) capsular polysaccharide synthesis enzyme Cap8C [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00573 1281 1915 + cap8C 83.0 97.6 NP_644941 (cap8C) capsular polysaccharide synthesis enzyme Cap8C [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00007 6306 8129 - cap8D 100.0 99.9 NP_644942 (cap8D) capsular polysaccharide synthesis enzyme Cap8D [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00509 1 1575 + cap8D 86.3 98.5 NP_644942 (cap8D) capsular polysaccharide synthesis enzyme Cap8D [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00007 5288 6316 - cap8E 100.0 99.1 NP_644943 (cap8E) capsular polysaccharide synthesis enzyme Cap8E [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00007 4166 5275 - cap8F 100.0 99.5 NP_644944 (cap8F) capsular polysaccharide synthesis enzyme Cap8F [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00599 112 1221 + cap8F 100.0 97.0 NP_644944 (cap8F) capsular polysaccharide synthesis enzyme Cap8F [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00007 3038 4162 - cap8G 100.0 99.6 NP_644945 (cap8G) capsular polysaccharide synthesis enzyme Cap8G [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00172 1063 2268 + cap8L 100.0 99.8 NP_644950 (cap8L) capsular polysaccharide synthesis enzyme Cap8L [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00291 553 1758 + cap8L 100.0 97.8 NP_644950 (cap8L) capsular polysaccharide synthesis enzyme Cap8L [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00172 2279 2836 + cap8M 100.0 99.8 NP_644951 (cap8M) capsular polysaccharide synthesis enzyme Cap8M [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00291 1769 2326 + cap8M 100.0 98.0 NP_644951 (cap8M) capsular polysaccharide synthesis enzyme Cap8M [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00172 2836 3723 + cap8N 100.0 98.7 NP_644952 (cap8N) capsular polysaccharide synthesis enzyme Cap8N [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00291 2326 3213 + cap8N 100.0 97.8 NP_644952 (cap8N) capsular polysaccharide synthesis enzyme Cap8N [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00172 3777 5039 + cap8O 100.0 98.7 NP_644953 (cap8O) capsular polysaccharide synthesis enzyme Cap8O [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00172 5116 6261 + cap8P 100.0 99.4 NP_644954 (cap8P) capsular polysaccharide synthesis enzyme Cap8P [Capsule (VF0003)] [Staphylococcus aureus subsp. aureus MW2]
contig00010 4569 5018 - chp 100.0 99.8 YP_001332911 (chp) chemotaxis-inhibiting protein CHIPS [CHIPS (VF0424)] [Staphylococcus aureus subsp. aureus str. Newman]
contig00009 5715 8534 - clfA 98.7 96.0 NP_645581 (clfA) Clumping factor A fibrinogen-binding protein [Clumping factor (VF0004)] [Staphylococcus aureus subsp. aureus MW2]
contig00004 40121 42898 - clfB 99.9 90.7 NP_647368 (clfB) Clumping factor B adhesin [Clumping factor (VF0004)] [Staphylococcus aureus subsp. aureus MW2]
contig00017 2273 4183 + coa 98.6 80.3 NP_645021 (coa) staphylocoagulase precursor [Staphylocoagulase (VF0421)] [Staphylococcus aureus subsp. aureus MW2]
contig00463 126 1769 + coa 86.3 84.0 NP_645021 (coa) staphylocoagulase precursor [Staphylocoagulase (VF0421)] [Staphylococcus aureus subsp. aureus MW2]
contig00067 2820 4280 + ebp 100.0 98.0 NP_646186 (ebp) cell surface elastin binding protein [EbpS (VF0008)] [Staphylococcus aureus subsp. aureus MW2]
contig00674 210 1579 + ebp 93.6 95.0 NP_646186 (ebp) cell surface elastin binding protein [EbpS (VF0008)] [Staphylococcus aureus subsp. aureus MW2]
contig00061 3291 6320 - esaA 100.0 99.1 NP_645074 (esaA) type VII secretion system protein EsaA [Type VII secretion system (VF0403)] [Staphylococcus aureus subsp. aureus MW2]
contig00061 2619 2861 - esaB 100.0 100.0 NP_645076 (esaB) type VII secretion system protein EsaB [Type VII secretion system (VF0403)] [Staphylococcus aureus subsp. aureus MW2]
contig00257 3198 3590 + esaC 100.0 98.7 NP_645081 (esaC) type VII secretion system protein secreted protein EsxC [Type VII secretion system (VF0403)] [Staphylococcus aureus subsp. aureus MW2]
contig00748 882 1274 + esaC 100.0 98.0 NP_645081 (esaC) type VII secretion system protein secreted protein EsxC [Type VII secretion system (VF0403)] [Staphylococcus aureus subsp. aureus MW2]
contig00061 2833 3291 - essA 100.0 99.8 NP_645075 (essA) type VII secretion system protein EssA monotopic membrane protein [Type VII secretion system (VF0403)] [Staphylococcus aureus subsp. aureus MW2]
contig00061 1272 2606 - essB 100.0 99.9 NP_645078 (essB) type VII secretion system protein EssB monotopic membrane protein [Type VII secretion system (VF0403)] [Staphylococcus aureus subsp. aureus MW2]
contig00061 6404 6697 - esxA 100.0 100.0 NP_645073 (esxA) type VII secretion system protein secreted protein EsxA [Type VII secretion system (VF0403)] [Staphylococcus aureus subsp. aureus MW2]
contig00257 3606 3920 + esxB 100.0 99.4 NP_645082 (esxB) type VII secretion system protein secreted protein EsxB [Type VII secretion system (VF0403)] [Staphylococcus aureus subsp. aureus MW2]
contig00037 3926 6982 - fnbA 99.6 87.6 NP_647238 (fnbA) fibronectin-binding protein A [FnBPs (VF0010)] [Staphylococcus aureus subsp. aureus MW2]
contig00347 691 3410 - fnbA 88.8 86.2 NP_647238 (fnbA) fibronectin-binding protein A [FnBPs (VF0010)] [Staphylococcus aureus subsp. aureus MW2]
contig00037 422 3244 - fnbB 98.9 86.5 NP_647237 (fnbB) fibronectin-binding protein B [FnBPs (VF0010)] [Staphylococcus aureus subsp. aureus MW2]
contig00381 66 2891 - fnbB 98.8 86.4 NP_647237 (fnbB) fibronectin-binding protein B [FnBPs (VF0010)] [Staphylococcus aureus subsp. aureus MW2]
contig00011 10976 13044 + geh 99.8 99.5 NP_645114 (geh) glycerol ester hydrolase [Lipase (VF0012)] [Staphylococcus aureus subsp. aureus MW2]
contig00209 75 2153 + geh 100.0 94.1 NP_645114 (geh) glycerol ester hydrolase [Lipase (VF0012)] [Staphylococcus aureus subsp. aureus MW2]
contig00013 3949 4772 + hlb 83.0 100.0 YP_186826 (hlb) beta-hemolysin [<beta>-hemolysin (VF0002)] [Staphylococcus aureus subsp. aureus COL]
contig00013 22741 22875 - hld 100.0 99.3 NP_646776 (hld) delta-hemolysin [<delta>-hemolysin (VF0007)] [Staphylococcus aureus subsp. aureus MW2]
contig00018 19983 20912 - hlgA 100.0 99.5 NP_647159 (hlgA) gamma-hemolysin chain II precursor [<gamma>-hemolysin (VF0011)] [Staphylococcus aureus subsp. aureus MW2]
contig00018 17489 18466 - hlgB 100.0 99.9 NP_647161 (hlgB) gamma-hemolysin component B [<gamma>-hemolysin (VF0011)] [Staphylococcus aureus subsp. aureus MW2]
contig00119 788 1765 + hlgB 100.0 94.7 NP_647161 (hlgB) gamma-hemolysin component B [<gamma>-hemolysin (VF0011)] [Staphylococcus aureus subsp. aureus MW2]
contig00018 18468 19415 - hlgC 100.0 99.4 NP_647160 (hlgC) gamma-hemolysin component C [<gamma>-hemolysin (VF0011)] [Staphylococcus aureus subsp. aureus MW2]
contig00119 1 786 + hlgC 82.9 84.1 NP_647160 (hlgC) gamma-hemolysin component C [<gamma>-hemolysin (VF0011)] [Staphylococcus aureus subsp. aureus MW2]
contig00142 384 1343 + hly/hla 100.0 99.5 NP_645861 (hly/hla) Alpha-Hemolysin precursor [<alpha>-hemolysin (VF0001)] [Staphylococcus aureus subsp. aureus MW2]
contig00005 17217 19631 - hysA 98.5 90.6 NP_646946 (hysA) hyaluronate lyase precursor [Hyaluronate lyase (VF0013)] [Staphylococcus aureus subsp. aureus MW2]
contig00002 32159 33397 - icaA 100.0 99.9 NP_647403 (icaA) N-acetylglucosaminyltransferase involved in polysaccharide intercellular adhesin(PIA) synthesis [Intercellular adhesion proteins (VF0014)] [Staphylococcus aureus subsp. aureus MW2]
contig00002 31021 31893 - icaB 100.0 100.0 NP_647405 (icaB) N-deacetylase involved in polysaccharide intercellular adhesin(PIA) synthesis [Intercellular adhesion proteins (VF0014)] [Staphylococcus aureus subsp. aureus MW2]
contig00002 29982 31034 - icaC 100.0 100.0 NP_647406 (icaC) intercellular adhesion protein C involved in polysaccharide intercellular adhesin(PIA) synthesis [Intercellular adhesion proteins (VF0014)] [Staphylococcus aureus subsp. aureus MW2]
contig00352 2332 3327 - icaC 94.6 95.2 NP_647406 (icaC) intercellular adhesion protein C involved in polysaccharide intercellular adhesin(PIA) synthesis [Intercellular adhesion proteins (VF0014)] [Staphylococcus aureus subsp. aureus MW2]
contig00002 31890 32195 - icaD 100.0 100.0 NP_647404 (icaD) intercellular adhesion protein D involved in polysaccharide intercellular adhesin(PIA) synthesis [Intercellular adhesion proteins (VF0014)] [Staphylococcus aureus subsp. aureus MW2]
contig00002 33561 34121 + icaR 100.0 100.0 NP_647402 (icaR) ica operon transcriptional regulator IcaR [Intercellular adhesion proteins (VF0014)] [Staphylococcus aureus subsp. aureus MW2]
contig00713 387 947 + icaR 100.0 98.8 NP_647402 (icaR) ica operon transcriptional regulator IcaR [Intercellular adhesion proteins (VF0014)] [Staphylococcus aureus subsp. aureus MW2]
contig00025 19940 20992 + isdA 100.0 100.0 YP_001332075 (isdA) iron-regulated surface determinant protein A [Isd (VF0015)] [Staphylococcus aureus subsp. aureus str. Newman]
contig00025 21195 23132 + isdB 100.0 100.0 YP_001332074 (isdB) iron-regulated surface determinant protein B haemoglobin receptor [Isd (VF0015)] [Staphylococcus aureus subsp. aureus str. Newman]
contig00025 19048 19731 - isdC 100.0 100.0 YP_001332076 (isdC) iron-regulated surface determinant protein C [Isd (VF0015)] [Staphylococcus aureus subsp. aureus str. Newman]
contig00025 17972 19048 - isdD 100.0 99.7 NP_645831 (isdD) iron-regulated surface determinant protein D [Isd (VF0015)] [Staphylococcus aureus subsp. aureus MW2]
contig00025 17097 17975 - isdE 100.0 100.0 YP_001332078 (isdE) iron-regulated surface determinant protein E [Isd (VF0015)] [Staphylococcus aureus subsp. aureus str. Newman]
contig00025 16119 17084 - isdF 100.0 99.7 NP_645833 (isdF) iron-regulated surface determinant protein F ATP-binding-cassette-type transmembrane transporter [Isd (VF0015)] [Staphylococcus aureus subsp. aureus MW2]
contig00446 1511 2476 - isdF 100.0 97.7 NP_645833 (isdF) iron-regulated surface determinant protein F ATP-binding-cassette-type transmembrane transporter [Isd (VF0015)] [Staphylococcus aureus subsp. aureus MW2]
contig00025 14981 15304 - isdG 100.0 100.0 YP_001332081 (isdG) iron-regulated surface determinant protein G [Isd (VF0015)] [Staphylococcus aureus subsp. aureus str. Newman]
contig00446 373 696 - isdG 100.0 99.1 YP_001332081 (isdG) iron-regulated surface determinant protein G [Isd (VF0015)] [Staphylococcus aureus subsp. aureus str. Newman]
contig00002 27490 29535 + lip 100.0 100.0 NP_647407 (lip) triacylglycerol lipase precursor [Lipase (CVF091)] [Staphylococcus aureus subsp. aureus MW2]
contig00352 1 1997 + lip 97.6 98.0 NP_647407 (lip) triacylglycerol lipase precursor [Lipase (CVF091)] [Staphylococcus aureus subsp. aureus MW2]
contig00019 14095 15063 - lukF-PV 99.0 82.0 NP_646195 (lukF-PV) Panton-Valentine leukocidin chain F precursor [PVL (VF0018)] [Staphylococcus aureus subsp. aureus MW2]
contig00353 668 1645 + lukF-PV 100.0 99.9 NP_646195 (lukF-PV) Panton-Valentine leukocidin chain F precursor [PVL (VF0018)] [Staphylococcus aureus subsp. aureus MW2]
contig00010 7813 9567 + map 100.0 99.6 CAB94853 (map) extracellular proteins Map [Eap/Map (VF0016)] [Staphylococcus aureus str. Newman D2C (ATCC 25904)]
contig00010 2998 3489 + sak 100.0 99.2 NP_646702 (sak) Staphylokinase precursor [Staphylokinase (VF0021)] [Staphylococcus aureus subsp. aureus MW2]
contig00018 21448 22758 - sbi 99.8 97.7 NP_647158 (sbi) IgG-binding protein SBI [Sbi (VF0423)] [Staphylococcus aureus subsp. aureus MW2]
contig00010 5702 6052 + scn 100.0 100.0 YP_001332910 (scn) complement inhibitor SCIN [SCIN (VF0425)] [Staphylococcus aureus subsp. aureus str. Newman]
contig00012 14918 17591 - sdrC 93.2 95.0 NP_645333 (sdrC) Ser-Asp rich fibrinogen-binding bone sialoprotein-binding protein [SDr (VF0019)] [Staphylococcus aureus subsp. aureus MW2]
contig00012 10206 14261 - sdrD 99.8 96.9 NP_645334 (sdrD) Ser-Asp rich fibrinogen-binding bone sialoprotein-binding protein [SDr (VF0019)] [Staphylococcus aureus subsp. aureus MW2]
contig00360 1 3267 + sdrD 80.8 97.9 NP_645334 (sdrD) Ser-Asp rich fibrinogen-binding bone sialoprotein-binding protein [SDr (VF0019)] [Staphylococcus aureus subsp. aureus MW2]
contig00012 6306 9812 - sdrE 100.0 95.7 NP_645335 (sdrE) Ser-Asp rich fibrinogen-binding bone sialoprotein-binding protein [SDr (VF0019)] [Staphylococcus aureus subsp. aureus MW2]
contig00137 730 4185 + sdrE 100.0 91.6 NP_645335 (sdrE) Ser-Asp rich fibrinogen-binding bone sialoprotein-binding protein [SDr (VF0019)] [Staphylococcus aureus subsp. aureus MW2]
contig00006 39304 40782 - spa 100.0 97.6 NP_644899 (spa) Immunoglobulin G binding protein A precursor [SpA (VF0017)] [Staphylococcus aureus subsp. aureus MW2]
contig00025 15323 16057 - srtB 100.0 99.6 NP_645834 (srtB) NPQTN specific sortase B [Isd (VF0015)] [Staphylococcus aureus subsp. aureus MW2]
contig00446 715 1449 - srtB 100.0 98.0 NP_645834 (srtB) NPQTN specific sortase B [Isd (VF0015)] [Staphylococcus aureus subsp. aureus MW2]
contig00157 2808 3818 - sspA 100.0 96.4 NP_645749 (sspA) serine protease; V8 protease; glutamyl endopeptidase [V8 protease (VF0023)] [Staphylococcus aureus subsp. aureus MW2]
contig00342 100 1083 + sspA 100.0 95.2 NP_645749 (sspA) serine protease; V8 protease; glutamyl endopeptidase [V8 protease (VF0023)] [Staphylococcus aureus subsp. aureus MW2]
contig00157 1545 2726 - sspB 100.0 99.1 NP_645748 (sspB) staphopain cysteine proteinase SspB [Staphopain (VF0006)] [Staphylococcus aureus subsp. aureus MW2]
contig00342 1165 2346 + sspB 100.0 98.4 NP_645748 (sspB) staphopain cysteine proteinase SspB [Staphopain (VF0006)] [Staphylococcus aureus subsp. aureus MW2]
contig00157 1178 1507 - sspC 100.0 99.7 NP_645747 (sspC) Staphostatin B [Staphopain (VF0006)] [Staphylococcus aureus subsp. aureus MW2]
contig00342 2384 2713 + sspC 100.0 98.5 NP_645747 (sspC) Staphostatin B [Staphopain (VF0006)] [Staphylococcus aureus subsp. aureus MW2]
contig00009 3968 5494 - vWbp 100.0 100.0 YP_001331791 (vWbp) secreted von Willebrand factor-binding protein precursor [vWbp (VF0420)] [Staphylococcus aureus subsp. aureus str. Newman]
ORTHO025E
Contig Start End Strand Gene Coverage Identity Accession Product
contig00070 4717 5550 + csgG 99.9 81.7 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
contig00129 1463 2202 + entA 98.5 80.4 NP_752614 (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073]
contig00013 45069 46114 + ompA 99.0 83.6 AAF37887 (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218]


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Multi-Locus Sequence Typing (MLST)


Symbol Meaning
~ novel full length allele similar to match
? partial match to known allele
- allele missing


Scheme ST 1 2 3 4 5 6 7
ID001 ecloacae 125 dnaA(63) fusA(3) gyrB(66) leuS(68) pyrG(3) rplB(16) rpoB(3)
ID013II ecloacae - dnaA(~315) fusA(~51) gyrB(65) leuS(86) pyrG(~153) rplB(~22) rpoB(1)
ID038 ecloacae 190 dnaA(9) fusA(4) gyrB(15) leuS(6) pyrG(37) rplB(4) rpoB(9)
ID086 ecoli 131 adk(53) fumC(40) gyrB(47) icd(13) mdh(36) purA(28) recA(29)
ID086II ecloacae 144 dnaA(74) fusA(20) gyrB(74) leuS(78) pyrG(45) rplB(35) rpoB(32)
ID267 abaumannii_2 1 Pas_cpn60(1) Pas_fusA(1) Pas_gltA(1) Pas_pyrG(1) Pas_recA(5) Pas_rplB(1) Pas_rpoB(1)
ORTHO006E - -
ORTHO008E ecoli 1722 adk(101) fumC(4) gyrB(97) icd(29) mdh(70) purA(158) recA(2)
ORTHO014EII ecloacae 102 dnaA(59) fusA(9) gyrB(12) leuS(9) pyrG(67) rplB(6) rpoB(25)
ORTHO025E ecloacae - dnaA(289) fusA(~85) gyrB(~218) leuS(~229) pyrG(~283) rplB(61) rpoB(129)
ORTHO025EII saureus - arcC(3,46) aroE(3,75) glpF(1,49) gmk(1,44) pta(4) tpi(4,68) yqiL(3,60)

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Pangenome Analysis

Pangenome genes summary

Genes Description Number
Core genes (99% <= strains <= 100%) 0
Soft core genes (95% <= strains < 99%) 0
Shell genes (15% <= strains < 95%) 9487
Cloud genes (0% <= strains < 15%) 17813
Total genes (0% <= strains <= 100%) 27300

Schematic representation of genes presence (color) or absence (blank) between samples:


Pangenome tree based on presence/absence of accessory genes representation

Rectangular (phylogram)

Circular (phylogram)

Circular (cladogram)


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Pangenome tree based on core genome alignment representation

Rectangular (phylogram)

Circular (phylogram)

Circular (cladogram)


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Insertion sequence characterization


Field Description
Region Numeric code given to insertion sequence (IS)
Orientation The orientation of IS position: Either forward (F) or reverse (F)
X-cordinates The left coordinate of the position
Y-coordinates The right coordinate of the position
Gap The distance between the x and y coordinates
CallType Describes whether a position hit is novel (not in reference) or known (in the reference)
LeftGene Locus tag ID of the gene closest to the left side of the IS position
LeftGeneDescription Description of the gene feature from the left side of the IS position. By default this is the product position
RightGene Locus tag ID of the gene closest to the right side of the IS position
RightGeneDescription Description of the gene feature from the right side of the IS position. By default this is the product position


Select the sample

ID001
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R 1249701 1249710 -9 novel MS7884_1190 arginine deiminase MS7884_1190 arginine deiminase
ID086II
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R 3915709 3915718 -9 novel MS7884_3704 RhsB MS7884_3704 RhsB
region_2 R 4462440 4462449 -9 novel MS7884_4211 hypothetical protein MS7884_4212 anaerobic dimethyl sulfoxide reductase subunit A
ORTHO008E
Region Orientation X-coordinates Y-coordinates Gap CallType LeftGene LeftGeneDescription RightGene RightGeneDescription
region_1 R -1 2663195 2663196 novel MS7884_4565 beta-ketoacyl-[acyl-carrier-protein] synthase II MS7884_2525 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA


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Citations and Bibliography

If you have used rMAP, please cite:

Sserwadda, I., & Mboowa, G. (2021). rMAP: the Rapid Microbial Analysis Pipeline for ESKAPE bacterial group whole-genome sequence data. Microbial genomics, 7(6), 10.1099/mgen.0.000583. https://doi.org/10.1099/mgen.0.000583


The philosophy of rMAP was built on the foundation of already pre-existing tools. As a token of gratitude to the authors of those numerous tools, please also cite:


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